Enum: EnumEDAMFormats

Data formats from the EDAM ontology.

URI: [includedcc:EnumEDAMFormats](https://includedcc.org/include-access-model/EnumEDAMFormats) ## Enumeration Source **Reachable From:** - **Source:** NONE - **Nodes:** edam:format_1915 - **Via:** rdfs:subClassOf ## Permissible Values | Value | Meaning | Description | Additional Info | | --- | --- | --- | --- | | edam:format_1196 | edam:format_1196 | Chemical structure specified in Simplified Molecular Input Line Entry System ... | Title: SMILES
| | edam:format_1197 | edam:format_1197 | Chemical structure specified in IUPAC International Chemical Identifier (InCh... | Title: InChI
| | edam:format_1198 | edam:format_1198 | Chemical structure specified by Molecular Formula (MF), including a count of ... | Title: mf
| | edam:format_1199 | edam:format_1199 | The InChIKey (hashed InChI) is a fixed length (25 character) condensed digita... | Title: InChIKey
| | edam:format_1200 | edam:format_1200 | SMILES ARbitrary Target Specification (SMARTS) format for chemical structure ... | Title: smarts
| | edam:format_1206 | edam:format_1206 | Alphabet for a molecular sequence with possible unknown positions but without... | Title: unambiguous pure
| | edam:format_1207 | edam:format_1207 | Alphabet for a nucleotide sequence with possible ambiguity, unknown positions... | Title: nucleotide
| | edam:format_1208 | edam:format_1208 | Alphabet for a protein sequence with possible ambiguity, unknown positions an... | Title: protein
| | edam:format_1209 | edam:format_1209 | Alphabet for the consensus of two or more molecular sequences | Title: consensus
| | edam:format_1210 | edam:format_1210 | Alphabet for a nucleotide sequence with possible ambiguity and unknown positi... | Title: pure nucleotide
| | edam:format_1211 | edam:format_1211 | Alphabet for a nucleotide sequence (characters ACGTU only) with possible unkn... | Title: unambiguous pure nucleotide
| | edam:format_1212 | edam:format_1212 | Alphabet for a DNA sequence with possible ambiguity, unknown positions and no... | Title: dna
| | edam:format_1213 | edam:format_1213 | Alphabet for an RNA sequence with possible ambiguity, unknown positions and n... | Title: rna
| | edam:format_1214 | edam:format_1214 | Alphabet for a DNA sequence (characters ACGT only) with possible unknown posi... | Title: unambiguous pure dna
| | edam:format_1215 | edam:format_1215 | Alphabet for a DNA sequence with possible ambiguity and unknown positions but... | Title: pure dna
| | edam:format_1216 | edam:format_1216 | Alphabet for an RNA sequence (characters ACGU only) with possible unknown pos... | Title: unambiguous pure rna sequence
| | edam:format_1217 | edam:format_1217 | Alphabet for an RNA sequence with possible ambiguity and unknown positions bu... | Title: pure rna
| | edam:format_1218 | edam:format_1218 | Alphabet for any protein sequence with possible unknown positions but without... | Title: unambiguous pure protein
| | edam:format_1219 | edam:format_1219 | Alphabet for any protein sequence with possible ambiguity and unknown positio... | Title: pure protein
| | edam:format_1248 | edam:format_1248 | Format for sequence positions (feature location) as used in DDBJ/EMBL/GenBank... | Title: EMBL feature location
| | edam:format_1295 | edam:format_1295 | Report format for tandem repeats in a nucleotide sequence (format generated b... | Title: quicktandem
| | edam:format_1296 | edam:format_1296 | Report format for inverted repeats in a nucleotide sequence (format generated... | Title: Sanger inverted repeats
| | edam:format_1297 | edam:format_1297 | Report format for tandem repeats in a sequence (an EMBOSS report format) | Title: EMBOSS repeat
| | edam:format_1316 | edam:format_1316 | Format of a report on exon-intron structure generated by EMBOSS est2genome | Title: est2genome format
| | edam:format_1318 | edam:format_1318 | Report format for restriction enzyme recognition sites used by EMBOSS restric... | Title: restrict format
| | edam:format_1319 | edam:format_1319 | Report format for restriction enzyme recognition sites used by EMBOSS restove... | Title: restover format
| | edam:format_1320 | edam:format_1320 | Report format for restriction enzyme recognition sites used by REBASE databas... | Title: REBASE restriction sites
| | edam:format_1332 | edam:format_1332 | Format of results of a sequence database search using FASTA | Title: FASTA search results format
| | edam:format_1333 | edam:format_1333 | Format of results of a sequence database search using some variant of BLAST | Title: BLAST results
| | edam:format_1334 | edam:format_1334 | Format of results of a sequence database search using some variant of MSPCrun... | Title: mspcrunch
| | edam:format_1335 | edam:format_1335 | Format of results of a sequence database search using some variant of Smith W... | Title: Smith-Waterman format
| | edam:format_1336 | edam:format_1336 | Format of EMBASSY domain hits file (DHF) of hits (sequences) with domain clas... | Title: dhf
| | edam:format_1337 | edam:format_1337 | Format of EMBASSY ligand hits file (LHF) of database hits (sequences) with li... | Title: lhf
| | edam:format_1341 | edam:format_1341 | Results format for searches of the InterPro database | Title: InterPro hits format
| | edam:format_1342 | edam:format_1342 | Format of results of a search of the InterPro database showing matches of que... | Title: InterPro protein view report format
| | edam:format_1343 | edam:format_1343 | Format of results of a search of the InterPro database showing matches betwee... | Title: InterPro match table format
| | edam:format_1349 | edam:format_1349 | Dirichlet distribution HMMER format | Title: HMMER Dirichlet prior
| | edam:format_1350 | edam:format_1350 | Dirichlet distribution MEME format | Title: MEME Dirichlet prior
| | edam:format_1351 | edam:format_1351 | Format of a report from the HMMER package on the emission and transition coun... | Title: HMMER emission and transition
| | edam:format_1356 | edam:format_1356 | Format of a regular expression pattern from the Prosite database | Title: prosite-pattern
| | edam:format_1357 | edam:format_1357 | Format of an EMBOSS sequence pattern | Title: EMBOSS sequence pattern
| | edam:format_1360 | edam:format_1360 | A motif in the format generated by the MEME program | Title: meme-motif
| | edam:format_1366 | edam:format_1366 | Sequence profile (sequence classifier) format used in the PROSITE database | Title: prosite-profile
| | edam:format_1367 | edam:format_1367 | A profile (sequence classifier) in the format used in the JASPAR database | Title: JASPAR format
| | edam:format_1369 | edam:format_1369 | Format of the model of random sequences used by MEME | Title: MEME background Markov model
| | edam:format_1370 | edam:format_1370 | Format of a hidden Markov model representation used by the HMMER package | Title: HMMER format
| | edam:format_1391 | edam:format_1391 | FASTA-style format for multiple sequences aligned by HMMER package to an HMM | Title: HMMER-aln
| | edam:format_1392 | edam:format_1392 | Format of multiple sequences aligned by DIALIGN package | Title: DIALIGN format
| | edam:format_1393 | edam:format_1393 | EMBASSY 'domain alignment file' (DAF) format, containing a sequence alignment... | Title: daf
| | edam:format_1419 | edam:format_1419 | Format for alignment of molecular sequences to MEME profiles (position-depend... | Title: Sequence-MEME profile alignment
| | edam:format_1421 | edam:format_1421 | Format used by the HMMER package for an alignment of a sequence against a hid... | Title: HMMER profile alignment (sequences versus HMMs)
| | edam:format_1422 | edam:format_1422 | Format used by the HMMER package for of an alignment of a hidden Markov model... | Title: HMMER profile alignment (HMM versus sequences)
| | edam:format_1423 | edam:format_1423 | Format of PHYLIP phylogenetic distance matrix data | Title: Phylip distance matrix
| | edam:format_1424 | edam:format_1424 | Dendrogram (tree file) format generated by ClustalW | Title: ClustalW dendrogram
| | edam:format_1425 | edam:format_1425 | Raw data file format used by Phylip from which a phylogenetic tree is directl... | Title: Phylip tree raw
| | edam:format_1430 | edam:format_1430 | PHYLIP file format for continuous quantitative character data | Title: Phylip continuous quantitative characters
| | edam:format_1432 | edam:format_1432 | PHYLIP file format for phylogenetics character frequency data | Title: Phylip character frequencies format
| | edam:format_1433 | edam:format_1433 | Format of PHYLIP discrete states data | Title: Phylip discrete states format
| | edam:format_1434 | edam:format_1434 | Format of PHYLIP cliques data | Title: Phylip cliques format
| | edam:format_1435 | edam:format_1435 | Phylogenetic tree data format used by the PHYLIP program | Title: Phylip tree format
| | edam:format_1436 | edam:format_1436 | The format of an entry from the TreeBASE database of phylogenetic data | Title: TreeBASE format
| | edam:format_1437 | edam:format_1437 | The format of an entry from the TreeFam database of phylogenetic data | Title: TreeFam format
| | edam:format_1445 | edam:format_1445 | Format for distances, such as Branch Score distance, between two or more phyl... | Title: Phylip tree distance format
| | edam:format_1454 | edam:format_1454 | Format of an entry from the DSSP database (Dictionary of Secondary Structure ... | Title: dssp
| | edam:format_1455 | edam:format_1455 | Entry format of the HSSP database (Homology-derived Secondary Structure in Pr... | Title: hssp
| | edam:format_1457 | edam:format_1457 | Format of RNA secondary structure in dot-bracket notation, originally generat... | Title: Dot-bracket format
| | edam:format_1458 | edam:format_1458 | Format of local RNA secondary structure components with free energy values, g... | Title: Vienna local RNA secondary structure format
| | edam:format_1475 | edam:format_1475 | Format of an entry (or part of an entry) from the PDB database | Title: PDB database entry format
| | edam:format_1476 | edam:format_1476 | Entry format of PDB database in PDB format | Title: PDB
| | edam:format_1477 | edam:format_1477 | Entry format of PDB database in mmCIF format | Title: mmCIF
| | edam:format_1478 | edam:format_1478 | Entry format of PDB database in PDBML (XML) format | Title: PDBML
| | edam:format_1504 | edam:format_1504 | Amino acid index format used by the AAindex database | Title: aaindex
| | edam:format_1551 | edam:format_1551 | Format of output of the Pcons Model Quality Assessment Program (MQAP) | Title: Pcons report format
| | edam:format_1552 | edam:format_1552 | Format of output of the ProQ protein model quality predictor | Title: ProQ report format
| | edam:format_1582 | edam:format_1582 | A report format for the kinetics of enzyme-catalysed reaction(s) in a format ... | Title: findkm
| | edam:format_1627 | edam:format_1627 | Report format on PCR primers and hybridisation oligos as generated by Whitehe... | Title: Primer3 primer
| | edam:format_1628 | edam:format_1628 | A format of raw sequence read data from an Applied Biosystems sequencing mach... | Title: ABI
| | edam:format_1629 | edam:format_1629 | Format of MIRA sequence trace information file | Title: mira
| | edam:format_1630 | edam:format_1630 | Common Assembly Format (CAF) | Title: CAF
| | edam:format_1631 | edam:format_1631 | Sequence assembly project file EXP format | Title: EXP
| | edam:format_1632 | edam:format_1632 | Staden Chromatogram Files format (SCF) of base-called sequence reads, qualiti... | Title: SCF
| | edam:format_1633 | edam:format_1633 | PHD sequence trace format to store serialised chromatogram data (reads) | Title: PHD
| | edam:format_1637 | edam:format_1637 | Format of Affymetrix data file of raw image data | Title: dat
| | edam:format_1638 | edam:format_1638 | Format of Affymetrix data file of information about (raw) expression levels o... | Title: cel
| | edam:format_1639 | edam:format_1639 | Format of affymetrix gene cluster files (hc-genes | Title: affymetrix
| | edam:format_1641 | edam:format_1641 | Affymetrix data file format for information about experimental conditions and... | Title: affymetrix-exp
| | edam:format_1644 | edam:format_1644 | Format of Affymetrix data file of information about (normalised) expression l... | Title: CHP
| | edam:format_1665 | edam:format_1665 | Format of Taverna workflows | Title: Taverna workflow format
| | edam:format_1705 | edam:format_1705 | The format of an entry from the HET group dictionary (HET groups from PDB fil... | Title: HET group dictionary entry format
| | edam:format_1734 | edam:format_1734 | Format of bibliographic reference as used by the PubMed database | Title: PubMed citation
| | edam:format_1735 | edam:format_1735 | Format for abstracts of scientific articles from the Medline database | Title: Medline Display Format
| | edam:format_1736 | edam:format_1736 | CiteXplore 'core' citation format including title, journal, authors and abstr... | Title: CiteXplore-core
| | edam:format_1737 | edam:format_1737 | CiteXplore 'all' citation format includes all known details such as Mesh term... | Title: CiteXplore-all
| | edam:format_1739 | edam:format_1739 | Article format of the PubMed Central database | Title: pmc
| | edam:format_1740 | edam:format_1740 | The format of iHOP (Information Hyperlinked over Proteins) text-mining result | Title: iHOP format
| | edam:format_1741 | edam:format_1741 | OSCAR format of annotated chemical text | Title: OSCAR format
| | edam:format_1861 | edam:format_1861 | Map of a plasmid (circular DNA) in PlasMapper TextMap format | Title: PlasMapper TextMap
| | edam:format_1910 | edam:format_1910 | Phylogenetic tree Newick (text) format | Title: newick
| | edam:format_1911 | edam:format_1911 | Phylogenetic tree TreeCon (text) format | Title: TreeCon format
| | edam:format_1912 | edam:format_1912 | Phylogenetic tree Nexus (text) format | Title: Nexus format
| | edam:format_1919 | edam:format_1919 | Data format for a molecular sequence record | Title: Sequence record format
| | edam:format_1920 | edam:format_1920 | Data format for molecular sequence feature information | Title: Sequence feature annotation format
| | edam:format_1921 | edam:format_1921 | Data format for molecular sequence alignment information | Title: Alignment format
| | edam:format_1923 | edam:format_1923 | ACEDB sequence format | Title: acedb
| | edam:format_1925 | edam:format_1925 | Codata entry format | Title: codata
| | edam:format_1926 | edam:format_1926 | Fasta format variant with database name before ID | Title: dbid
| | edam:format_1927 | edam:format_1927 | EMBL entry format | Title: EMBL format
| | edam:format_1928 | edam:format_1928 | Staden experiment file format | Title: Staden experiment format
| | edam:format_1929 | edam:format_1929 | FASTA format including NCBI-style IDs | Title: FASTA
| | edam:format_1930 | edam:format_1930 | FASTQ short read format ignoring quality scores | Title: FASTQ
| | edam:format_1931 | edam:format_1931 | FASTQ Illumina 1 | Title: FASTQ-illumina
| | edam:format_1932 | edam:format_1932 | FASTQ short read format with phred quality | Title: FASTQ-sanger
| | edam:format_1933 | edam:format_1933 | FASTQ Solexa/Illumina 1 | Title: FASTQ-solexa
| | edam:format_1934 | edam:format_1934 | Fitch program format | Title: fitch program
| | edam:format_1935 | edam:format_1935 | GCG sequence file format | Title: GCG
| | edam:format_1936 | edam:format_1936 | Genbank entry format | Title: GenBank format
| | edam:format_1937 | edam:format_1937 | Genpept protein entry format | Title: genpept
| | edam:format_1938 | edam:format_1938 | GFF feature file format with sequence in the header | Title: GFF2-seq
| | edam:format_1939 | edam:format_1939 | GFF3 feature file format with sequence | Title: GFF3-seq
| | edam:format_1940 | edam:format_1940 | FASTA sequence format including NCBI-style GIs | Title: giFASTA format
| | edam:format_1941 | edam:format_1941 | Hennig86 output sequence format | Title: hennig86
| | edam:format_1942 | edam:format_1942 | Intelligenetics sequence format | Title: ig
| | edam:format_1943 | edam:format_1943 | Intelligenetics sequence format (strict version) | Title: igstrict
| | edam:format_1944 | edam:format_1944 | Jackknifer interleaved and non-interleaved sequence format | Title: jackknifer
| | edam:format_1945 | edam:format_1945 | Mase program sequence format | Title: mase format
| | edam:format_1946 | edam:format_1946 | Mega interleaved and non-interleaved sequence format | Title: mega-seq
| | edam:format_1947 | edam:format_1947 | GCG MSF (multiple sequence file) file format | Title: GCG MSF
| | edam:format_1948 | edam:format_1948 | NBRF/PIR entry sequence format | Title: nbrf/pir
| | edam:format_1949 | edam:format_1949 | Nexus/paup interleaved sequence format | Title: nexus-seq
| | edam:format_1950 | edam:format_1950 | PDB sequence format (ATOM lines) | Title: pdbatom
| | edam:format_1951 | edam:format_1951 | PDB nucleotide sequence format (ATOM lines) | Title: pdbatomnuc
| | edam:format_1952 | edam:format_1952 | PDB nucleotide sequence format (SEQRES lines) | Title: pdbseqresnuc
| | edam:format_1953 | edam:format_1953 | PDB sequence format (SEQRES lines) | Title: pdbseqres
| | edam:format_1954 | edam:format_1954 | Plain old FASTA sequence format (unspecified format for IDs) | Title: Pearson format
| | edam:format_1957 | edam:format_1957 | Raw sequence format with no non-sequence characters | Title: raw
| | edam:format_1958 | edam:format_1958 | Refseq protein entry sequence format | Title: refseqp
| | edam:format_1960 | edam:format_1960 | Staden suite sequence format | Title: Staden format
| | edam:format_1961 | edam:format_1961 | Stockholm multiple sequence alignment format (used by Pfam and Rfam) | Title: Stockholm format
| | edam:format_1962 | edam:format_1962 | DNA strider output sequence format | Title: strider format
| | edam:format_1963 | edam:format_1963 | UniProtKB entry sequence format | Title: UniProtKB format
| | edam:format_1964 | edam:format_1964 | Plain text sequence format (essentially unformatted) | Title: plain text format (unformatted)
| | edam:format_1966 | edam:format_1966 | NCBI ASN | Title: ASN.1 sequence format
| | edam:format_1967 | edam:format_1967 | DAS sequence (XML) format (any type) | Title: DAS format
| | edam:format_1968 | edam:format_1968 | DAS sequence (XML) format (nucleotide-only) | Title: dasdna
| | edam:format_1969 | edam:format_1969 | EMBOSS debugging trace sequence format of full internal data content | Title: debug-seq
| | edam:format_1970 | edam:format_1970 | Jackknifer output sequence non-interleaved format | Title: jackknifernon
| | edam:format_1972 | edam:format_1972 | NCBI FASTA sequence format with NCBI-style IDs | Title: NCBI format
| | edam:format_1973 | edam:format_1973 | Nexus/paup non-interleaved sequence format | Title: nexusnon
| | edam:format_1974 | edam:format_1974 | General Feature Format (GFF) of sequence features | Title: GFF2
| | edam:format_1975 | edam:format_1975 | Generic Feature Format version 3 (GFF3) of sequence features | Title: GFF3
| | edam:format_1978 | edam:format_1978 | DAS GFF (XML) feature format | Title: DASGFF
| | edam:format_1979 | edam:format_1979 | EMBOSS debugging trace feature format of full internal data content | Title: debug-feat
| | edam:format_1982 | edam:format_1982 | ClustalW format for (aligned) sequences | Title: ClustalW format
| | edam:format_1983 | edam:format_1983 | EMBOSS alignment format for debugging trace of full internal data content | Title: debug
| | edam:format_1984 | edam:format_1984 | Fasta format for (aligned) sequences | Title: FASTA-aln
| | edam:format_1985 | edam:format_1985 | Pearson MARKX0 alignment format | Title: markx0
| | edam:format_1986 | edam:format_1986 | Pearson MARKX1 alignment format | Title: markx1
| | edam:format_1987 | edam:format_1987 | Pearson MARKX10 alignment format | Title: markx10
| | edam:format_1988 | edam:format_1988 | Pearson MARKX2 alignment format | Title: markx2
| | edam:format_1989 | edam:format_1989 | Pearson MARKX3 alignment format | Title: markx3
| | edam:format_1990 | edam:format_1990 | Alignment format for start and end of matches between sequence pairs | Title: match
| | edam:format_1991 | edam:format_1991 | Mega format for (typically aligned) sequences | Title: mega
| | edam:format_1992 | edam:format_1992 | Mega non-interleaved format for (typically aligned) sequences | Title: meganon
| | edam:format_1996 | edam:format_1996 | EMBOSS simple sequence pairwise alignment format | Title: pair
| | edam:format_1997 | edam:format_1997 | Phylip format for (aligned) sequences | Title: PHYLIP format
| | edam:format_1998 | edam:format_1998 | Phylip non-interleaved format for (aligned) sequences | Title: PHYLIP sequential
| | edam:format_1999 | edam:format_1999 | Alignment format for score values for pairs of sequences | Title: scores format
| | edam:format_2000 | edam:format_2000 | SELEX format for (aligned) sequences | Title: selex
| | edam:format_2001 | edam:format_2001 | EMBOSS simple multiple alignment format | Title: EMBOSS simple format
| | edam:format_2002 | edam:format_2002 | Simple multiple sequence (alignment) format for SRS | Title: srs format
| | edam:format_2003 | edam:format_2003 | Simple sequence pair (alignment) format for SRS | Title: srspair
| | edam:format_2004 | edam:format_2004 | T-Coffee program alignment format | Title: T-Coffee format
| | edam:format_2005 | edam:format_2005 | Treecon format for (aligned) sequences | Title: TreeCon-seq
| | edam:format_2006 | edam:format_2006 | Data format for a phylogenetic tree | Title: Phylogenetic tree format
| | edam:format_2013 | edam:format_2013 | Data format for a biological pathway or network | Title: Biological pathway or network format
| | edam:format_2014 | edam:format_2014 | Data format for a sequence-profile alignment | Title: Sequence-profile alignment format
| | edam:format_2017 | edam:format_2017 | Data format for an amino acid index | Title: Amino acid index format
| | edam:format_2020 | edam:format_2020 | Data format for a full-text scientific article | Title: Article format
| | edam:format_2021 | edam:format_2021 | Data format of a report from text mining | Title: Text mining report format
| | edam:format_2027 | edam:format_2027 | Data format for reports on enzyme kinetics | Title: Enzyme kinetics report format
| | edam:format_2030 | edam:format_2030 | Format of a report on a chemical compound | Title: Chemical data format
| | edam:format_2031 | edam:format_2031 | Format of a report on a particular locus, gene, gene system or groups of gene... | Title: Gene annotation format
| | edam:format_2032 | edam:format_2032 | Format of a workflow | Title: Workflow format
| | edam:format_2033 | edam:format_2033 | Data format for a molecular tertiary structure | Title: Tertiary structure format
| | edam:format_2035 | edam:format_2035 | Text format of a chemical formula | Title: Chemical formula format
| | edam:format_2036 | edam:format_2036 | Format of raw (unplotted) phylogenetic data | Title: Phylogenetic character data format
| | edam:format_2037 | edam:format_2037 | Format of phylogenetic continuous quantitative character data | Title: Phylogenetic continuous quantitative character format
| | edam:format_2038 | edam:format_2038 | Format of phylogenetic discrete states data | Title: Phylogenetic discrete states format
| | edam:format_2039 | edam:format_2039 | Format of phylogenetic cliques data | Title: Phylogenetic tree report (cliques) format
| | edam:format_2040 | edam:format_2040 | Format of phylogenetic invariants data | Title: Phylogenetic tree report (invariants) format
| | edam:format_2049 | edam:format_2049 | Format for phylogenetic tree distance data | Title: Phylogenetic tree report (tree distances) format
| | edam:format_2052 | edam:format_2052 | Format for reports on a protein family | Title: Protein family report format
| | edam:format_2054 | edam:format_2054 | Format for molecular interaction data | Title: Protein interaction format
| | edam:format_2055 | edam:format_2055 | Format for sequence assembly data | Title: Sequence assembly format
| | edam:format_2056 | edam:format_2056 | Format for information about a microarray experimental per se (not the data g... | Title: Microarray experiment data format
| | edam:format_2057 | edam:format_2057 | Format for sequence trace data (i | Title: Sequence trace format
| | edam:format_2058 | edam:format_2058 | Format of a file of gene expression data, e | Title: Gene expression report format
| | edam:format_2060 | edam:format_2060 | Format of a map of (typically one) molecular sequence annotated with features | Title: Map format
| | edam:format_2061 | edam:format_2061 | Format of a report on PCR primers or hybridisation oligos in a nucleic acid s... | Title: Nucleic acid features (primers) format
| | edam:format_2062 | edam:format_2062 | Format of a report of general information about a specific protein | Title: Protein report format
| | edam:format_2064 | edam:format_2064 | Format of a matrix of 3D-1D scores (amino acid environment probabilities) | Title: 3D-1D scoring matrix format
| | edam:format_2065 | edam:format_2065 | Format of a report on the quality of a protein three-dimensional model | Title: Protein structure report (quality evaluation) format
| | edam:format_2066 | edam:format_2066 | Format of a report on sequence hits and associated data from searching a sequ... | Title: Database hits (sequence) format
| | edam:format_2067 | edam:format_2067 | Format of a matrix of genetic distances between molecular sequences | Title: Sequence distance matrix format
| | edam:format_2068 | edam:format_2068 | Format of a sequence motif | Title: Sequence motif format
| | edam:format_2069 | edam:format_2069 | Format of a sequence profile | Title: Sequence profile format
| | edam:format_2072 | edam:format_2072 | Format of a hidden Markov model | Title: Hidden Markov model format
| | edam:format_2074 | edam:format_2074 | Data format of a dirichlet distribution | Title: Dirichlet distribution format
| | edam:format_2075 | edam:format_2075 | Data format for the emission and transition counts of a hidden Markov model | Title: HMM emission and transition counts format
| | edam:format_2076 | edam:format_2076 | Format for secondary structure (predicted or real) of an RNA molecule | Title: RNA secondary structure format
| | edam:format_2077 | edam:format_2077 | Format for secondary structure (predicted or real) of a protein molecule | Title: Protein secondary structure format
| | edam:format_2078 | edam:format_2078 | Format used to specify range(s) of sequence positions | Title: Sequence range format
| | edam:format_2094 | edam:format_2094 | Alphabet for molecular sequence with possible unknown positions but without n... | Title: pure
| | edam:format_2095 | edam:format_2095 | Alphabet for a molecular sequence with possible unknown positions but possibl... | Title: unpure
| | edam:format_2096 | edam:format_2096 | Alphabet for a molecular sequence with possible unknown positions but without... | Title: unambiguous sequence
| | edam:format_2097 | edam:format_2097 | Alphabet for a molecular sequence with possible unknown positions and possibl... | Title: ambiguous
| | edam:format_2155 | edam:format_2155 | Format used for map of repeats in molecular (typically nucleotide) sequences | Title: Sequence features (repeats) format
| | edam:format_2158 | edam:format_2158 | Format used for report on restriction enzyme recognition sites in nucleotide ... | Title: Nucleic acid features (restriction sites) format
| | edam:format_2170 | edam:format_2170 | Format used for clusters of molecular sequences | Title: Sequence cluster format
| | edam:format_2171 | edam:format_2171 | Format used for clusters of protein sequences | Title: Sequence cluster format (protein)
| | edam:format_2172 | edam:format_2172 | Format used for clusters of nucleotide sequences | Title: Sequence cluster format (nucleic acid)
| | edam:format_2181 | edam:format_2181 | A text format resembling EMBL entry format | Title: EMBL-like (text)
| | edam:format_2182 | edam:format_2182 | A text format resembling FASTQ short read format | Title: FASTQ-like format (text)
| | edam:format_2183 | edam:format_2183 | XML format for EMBL entries | Title: EMBLXML
| | edam:format_2184 | edam:format_2184 | Specific XML format for EMBL entries (only uses certain sections) | Title: cdsxml
| | edam:format_2185 | edam:format_2185 | INSDSeq provides the elements of a sequence as presented in the GenBank/EMBL/... | Title: INSDSeq
| | edam:format_2186 | edam:format_2186 | Geneseq sequence format | Title: geneseq
| | edam:format_2187 | edam:format_2187 | A text sequence format resembling uniprotkb entry format | Title: UniProt-like (text)
| | edam:format_2194 | edam:format_2194 | Abstract format used by MedLine database | Title: medline
| | edam:format_2195 | edam:format_2195 | Format used for ontologies | Title: Ontology format
| | edam:format_2196 | edam:format_2196 | A serialisation format conforming to the Open Biomedical Ontologies (OBO) mod... | Title: OBO format
| | edam:format_2197 | edam:format_2197 | A serialisation format conforming to the Web Ontology Language (OWL) model | Title: OWL format
| | edam:format_2200 | edam:format_2200 | A text format resembling FASTA format | Title: FASTA-like (text)
| | edam:format_2204 | edam:format_2204 | An XML format for EMBL entries | Title: EMBL format (XML)
| | edam:format_2205 | edam:format_2205 | A text format resembling GenBank entry (plain text) format | Title: GenBank-like format (text)
| | edam:format_2206 | edam:format_2206 | Text format for a sequence feature table | Title: Sequence feature table format (text)
| | edam:format_2304 | edam:format_2304 | Entry format (XML) for the STRING database of protein interaction | Title: STRING entry format (XML)
| | edam:format_2305 | edam:format_2305 | GFF feature format (of indeterminate version) | Title: GFF
| | edam:format_2306 | edam:format_2306 | Gene Transfer Format (GTF), a restricted version of GFF | Title: GTF
| | edam:format_2310 | edam:format_2310 | FASTA format wrapped in HTML elements | Title: FASTA-HTML
| | edam:format_2311 | edam:format_2311 | EMBL entry format wrapped in HTML elements | Title: EMBL-HTML
| | edam:format_2330 | edam:format_2330 | Textual format | Title: Textual format
| | edam:format_2331 | edam:format_2331 | HTML format | Title: HTML
| | edam:format_2332 | edam:format_2332 | eXtensible Markup Language (XML) format | Title: XML
| | edam:format_2333 | edam:format_2333 | Binary format | Title: Binary format
| | edam:format_2350 | edam:format_2350 | A placeholder concept for visual navigation by dividing data formats by the c... | Title: Format (by type of data)
| | edam:format_2352 | edam:format_2352 | BioXSD-schema-based XML format of sequence-based data and some other common d... | Title: BioXSD (XML)
| | edam:format_2376 | edam:format_2376 | A serialisation format conforming to the Resource Description Framework (RDF)... | Title: RDF format
| | edam:format_2532 | edam:format_2532 | Genbank entry format wrapped in HTML elements | Title: GenBank-HTML
| | edam:format_2543 | edam:format_2543 | A format resembling EMBL entry (plain text) format | Title: EMBL-like format
| | edam:format_2545 | edam:format_2545 | A format resembling FASTQ short read format | Title: FASTQ-like format
| | edam:format_2546 | edam:format_2546 | A format resembling FASTA format | Title: FASTA-like
| | edam:format_2547 | edam:format_2547 | A sequence format resembling uniprotkb entry format | Title: uniprotkb-like format
| | edam:format_2548 | edam:format_2548 | Format for a sequence feature table | Title: Sequence feature table format
| | edam:format_2549 | edam:format_2549 | OBO ontology text format | Title: OBO
| | edam:format_2550 | edam:format_2550 | OBO ontology XML format | Title: OBO-XML
| | edam:format_2551 | edam:format_2551 | Data format for a molecular sequence record (text) | Title: Sequence record format (text)
| | edam:format_2552 | edam:format_2552 | Data format for a molecular sequence record (XML) | Title: Sequence record format (XML)
| | edam:format_2553 | edam:format_2553 | XML format for a sequence feature table | Title: Sequence feature table format (XML)
| | edam:format_2554 | edam:format_2554 | Text format for molecular sequence alignment information | Title: Alignment format (text)
| | edam:format_2555 | edam:format_2555 | XML format for molecular sequence alignment information | Title: Alignment format (XML)
| | edam:format_2556 | edam:format_2556 | Text format for a phylogenetic tree | Title: Phylogenetic tree format (text)
| | edam:format_2557 | edam:format_2557 | XML format for a phylogenetic tree | Title: Phylogenetic tree format (XML)
| | edam:format_2558 | edam:format_2558 | An XML format resembling EMBL entry format | Title: EMBL-like (XML)
| | edam:format_2559 | edam:format_2559 | A format resembling GenBank entry (plain text) format | Title: GenBank-like format
| | edam:format_2561 | edam:format_2561 | Text format for sequence assembly data | Title: Sequence assembly format (text)
| | edam:format_2566 | edam:format_2566 | Alphabet for a molecular sequence without any unknown positions or ambiguity ... | Title: completely unambiguous
| | edam:format_2567 | edam:format_2567 | Alphabet for a molecular sequence without unknown positions, ambiguity or non... | Title: completely unambiguous pure
| | edam:format_2568 | edam:format_2568 | Alphabet for a nucleotide sequence (characters ACGTU only) without unknown po... | Title: completely unambiguous pure nucleotide
| | edam:format_2569 | edam:format_2569 | Alphabet for a DNA sequence (characters ACGT only) without unknown positions,... | Title: completely unambiguous pure dna
| | edam:format_2570 | edam:format_2570 | Alphabet for an RNA sequence (characters ACGU only) without unknown positions... | Title: completely unambiguous pure rna sequence
| | edam:format_2571 | edam:format_2571 | Format of a raw molecular sequence (i | Title: Raw sequence format
| | edam:format_2572 | edam:format_2572 | BAM format, the binary, BGZF-formatted compressed version of SAM format for a... | Title: BAM
| | edam:format_2573 | edam:format_2573 | Sequence Alignment/Map (SAM) format for alignment of nucleotide sequences (e | Title: SAM
| | edam:format_2585 | edam:format_2585 | Systems Biology Markup Language (SBML), the standard XML format for models of... | Title: SBML
| | edam:format_2607 | edam:format_2607 | Alphabet for any protein sequence without unknown positions, ambiguity or non... | Title: completely unambiguous pure protein
| | edam:format_2848 | edam:format_2848 | Format of a bibliographic reference | Title: Bibliographic reference format
| | edam:format_2919 | edam:format_2919 | Format of a sequence annotation track | Title: Sequence annotation track format
| | edam:format_2920 | edam:format_2920 | Data format for molecular sequence alignment information that can hold sequen... | Title: Alignment format (pair only)
| | edam:format_2921 | edam:format_2921 | Format of sequence variation annotation | Title: Sequence variation annotation format
| | edam:format_2922 | edam:format_2922 | Some variant of Pearson MARKX alignment format | Title: markx0 variant
| | edam:format_2923 | edam:format_2923 | Some variant of Mega format for (typically aligned) sequences | Title: mega variant
| | edam:format_2924 | edam:format_2924 | Some variant of Phylip format for (aligned) sequences | Title: Phylip format variant
| | edam:format_3000 | edam:format_3000 | AB1 binary format of raw DNA sequence reads (output of Applied Biosystems' se... | Title: AB1
| | edam:format_3001 | edam:format_3001 | ACE sequence assembly format including contigs, base-call qualities, and othe... | Title: ACE
| | edam:format_3003 | edam:format_3003 | Browser Extensible Data (BED) format of sequence annotation track, typically ... | Title: BED
| | edam:format_3004 | edam:format_3004 | bigBed format for large sequence annotation tracks, similar to textual BED fo... | Title: bigBed
| | edam:format_3005 | edam:format_3005 | Wiggle format (WIG) of a sequence annotation track that consists of a value f... | Title: WIG
| | edam:format_3006 | edam:format_3006 | bigWig format for large sequence annotation tracks that consist of a value fo... | Title: bigWig
| | edam:format_3007 | edam:format_3007 | PSL format of alignments, typically generated by BLAT or psLayout | Title: PSL
| | edam:format_3008 | edam:format_3008 | Multiple Alignment Format (MAF) supporting alignments of whole genomes with r... | Title: MAF
| | edam:format_3009 | edam:format_3009 | 2bit binary format of nucleotide sequences using 2 bits per nucleotide | Title: 2bit
| | edam:format_3010 | edam:format_3010 | | Title: .nib
| | edam:format_3011 | edam:format_3011 | genePred table format for gene prediction tracks | Title: genePred
| | edam:format_3012 | edam:format_3012 | Personal Genome SNP (pgSnp) format for sequence variation tracks (indels and ... | Title: pgSnp
| | edam:format_3013 | edam:format_3013 | axt format of alignments, typically produced from BLASTZ | Title: axt
| | edam:format_3014 | edam:format_3014 | LAV format of alignments generated by BLASTZ and LASTZ | Title: LAV
| | edam:format_3015 | edam:format_3015 | Pileup format of alignment of sequences (e | Title: Pileup
| | edam:format_3016 | edam:format_3016 | Variant Call Format (VCF) is tabular format for storing genomic sequence vari... | Title: VCF
| | edam:format_3017 | edam:format_3017 | Sequence Read Format (SRF) of sequence trace data | Title: SRF
| | edam:format_3018 | edam:format_3018 | ZTR format for storing chromatogram data from DNA sequencing instruments | Title: ZTR
| | edam:format_3019 | edam:format_3019 | Genome Variation Format (GVF) | Title: GVF
| | edam:format_3020 | edam:format_3020 | BCF is the binary version of Variant Call Format (VCF) for sequence variation... | Title: BCF
| | edam:format_3033 | edam:format_3033 | Format of a matrix (array) of numerical values | Title: Matrix format
| | edam:format_3097 | edam:format_3097 | Format of data concerning the classification of the sequences and/or structur... | Title: Protein domain classification format
| | edam:format_3098 | edam:format_3098 | Format of raw SCOP domain classification data files | Title: Raw SCOP domain classification format
| | edam:format_3099 | edam:format_3099 | Format of raw CATH domain classification data files | Title: Raw CATH domain classification format
| | edam:format_3100 | edam:format_3100 | Format of summary of domain classification information for a CATH domain | Title: CATH domain report format
| | edam:format_3155 | edam:format_3155 | Systems Biology Result Markup Language (SBRML), the standard XML format for s... | Title: SBRML
| | edam:format_3156 | edam:format_3156 | BioPAX is an exchange format for pathway data, with its data model defined in... | Title: BioPAX
| | edam:format_3157 | edam:format_3157 | EBI Application Result XML is a format returned by sequence similarity search... | Title: EBI Application Result XML
| | edam:format_3158 | edam:format_3158 | XML Molecular Interaction Format (MIF), standardised by HUPO PSI MI | Title: PSI MI XML (MIF)
| | edam:format_3159 | edam:format_3159 | phyloXML is a standardised XML format for phylogenetic trees, networks, and a... | Title: phyloXML
| | edam:format_3160 | edam:format_3160 | NeXML is a standardised XML format for rich phyloinformatic data | Title: NeXML
| | edam:format_3161 | edam:format_3161 | MAGE-ML XML format for microarray expression data, standardised by MGED (now ... | Title: MAGE-ML
| | edam:format_3162 | edam:format_3162 | MAGE-TAB textual format for microarray expression data, standardised by MGED ... | Title: MAGE-TAB
| | edam:format_3163 | edam:format_3163 | GCDML XML format for genome and metagenome metadata according to MIGS/MIMS/MI... | Title: GCDML
| | edam:format_3164 | edam:format_3164 | GTrack is a generic and optimised tabular format for genome or sequence featu... | Title: GTrack
| | edam:format_3166 | edam:format_3166 | Data format for a report of information derived from a biological pathway or ... | Title: Biological pathway or network report format
| | edam:format_3167 | edam:format_3167 | Data format for annotation on a laboratory experiment | Title: Experiment annotation format
| | edam:format_3235 | edam:format_3235 | Cytoband format for chromosome cytobands | Title: Cytoband format
| | edam:format_3239 | edam:format_3239 | CopasiML, the native format of COPASI | Title: CopasiML
| | edam:format_3240 | edam:format_3240 | CellML, the format for mathematical models of biological and other networks | Title: CellML
| | edam:format_3242 | edam:format_3242 | Tabular Molecular Interaction format (MITAB), standardised by HUPO PSI MI | Title: PSI MI TAB (MITAB)
| | edam:format_3243 | edam:format_3243 | Protein affinity format (PSI-PAR), standardised by HUPO PSI MI | Title: PSI-PAR
| | edam:format_3244 | edam:format_3244 | mzML format for raw spectrometer output data, standardised by HUPO PSI MSS | Title: mzML
| | edam:format_3245 | edam:format_3245 | Format for mass pectra and derived data, include peptide sequences etc | Title: Mass spectrometry data format
| | edam:format_3246 | edam:format_3246 | TraML (Transition Markup Language) is the format for mass spectrometry transi... | Title: TraML
| | edam:format_3247 | edam:format_3247 | mzIdentML is the exchange format for peptides and proteins identified from ma... | Title: mzIdentML
| | edam:format_3248 | edam:format_3248 | mzQuantML is the format for quantitation values associated with peptides, pro... | Title: mzQuantML
| | edam:format_3249 | edam:format_3249 | GelML is the format for describing the process of gel electrophoresis, standa... | Title: GelML
| | edam:format_3250 | edam:format_3250 | spML is the format for describing proteomics sample processing, other than us... | Title: spML
| | edam:format_3252 | edam:format_3252 | A human-readable encoding for the Web Ontology Language (OWL) | Title: OWL Functional Syntax
| | edam:format_3253 | edam:format_3253 | A syntax for writing OWL class expressions | Title: Manchester OWL Syntax
| | edam:format_3254 | edam:format_3254 | A superset of the "Description-Logic Knowledge Representation System Specific... | Title: KRSS2 Syntax
| | edam:format_3255 | edam:format_3255 | The Terse RDF Triple Language (Turtle) is a human-friendly serialisation form... | Title: Turtle
| | edam:format_3256 | edam:format_3256 | A plain text serialisation format for RDF (Resource Description Framework) gr... | Title: N-Triples
| | edam:format_3257 | edam:format_3257 | A shorthand non-XML serialisation of Resource Description Framework model, de... | Title: Notation3
| | edam:format_3261 | edam:format_3261 | Resource Description Framework (RDF) XML format | Title: RDF/XML
| | edam:format_3262 | edam:format_3262 | OWL ontology XML serialisation format | Title: OWL/XML
| | edam:format_3281 | edam:format_3281 | The A2M format is used as the primary format for multiple alignments of prote... | Title: A2M
| | edam:format_3284 | edam:format_3284 | Standard flowgram format (SFF) is a binary file format used to encode results... | Title: SFF
| | edam:format_3285 | edam:format_3285 | The MAP file describes SNPs and is used by the Plink package | Title: MAP
| | edam:format_3286 | edam:format_3286 | The PED file describes individuals and genetic data and is used by the Plink ... | Title: PED
| | edam:format_3287 | edam:format_3287 | Data format for a metadata on an individual and their genetic data | Title: Individual genetic data format
| | edam:format_3288 | edam:format_3288 | The PED/MAP file describes data used by the Plink package | Title: PED/MAP
| | edam:format_3309 | edam:format_3309 | File format of a CT (Connectivity Table) file from the RNAstructure package | Title: CT
| | edam:format_3310 | edam:format_3310 | XRNA old input style format | Title: SS
| | edam:format_3311 | edam:format_3311 | RNA Markup Language | Title: RNAML
| | edam:format_3312 | edam:format_3312 | Format for the Genetic Data Environment (GDE) | Title: GDE
| | edam:format_3313 | edam:format_3313 | A multiple alignment in vertical format, as used in the AMPS (Alignment of Mu... | Title: BLC
| | edam:format_3326 | edam:format_3326 | Format of a data index of some type | Title: Data index format
| | edam:format_3327 | edam:format_3327 | BAM indexing format | Title: BAI
| | edam:format_3328 | edam:format_3328 | HMMER profile HMM file for HMMER versions 2 | Title: HMMER2
| | edam:format_3329 | edam:format_3329 | HMMER profile HMM file for HMMER versions 3 | Title: HMMER3
| | edam:format_3330 | edam:format_3330 | PO is the output format of Partial Order Alignment program (POA) performing M... | Title: PO
| | edam:format_3331 | edam:format_3331 | XML format as produced by the NCBI Blast package | Title: BLAST XML results format
| | edam:format_3462 | edam:format_3462 | Reference-based compression of alignment format | Title: CRAM
| | edam:format_3464 | edam:format_3464 | JavaScript Object Notation format; a lightweight, text-based format to repres... | Title: JSON
| | edam:format_3466 | edam:format_3466 | Encapsulated PostScript format | Title: EPS
| | edam:format_3467 | edam:format_3467 | Graphics Interchange Format | Title: GIF
| | edam:format_3468 | edam:format_3468 | Microsoft Excel spreadsheet format | Title: xls
| | edam:format_3475 | edam:format_3475 | Tabular data represented as tab-separated values in a text file | Title: TSV
| | edam:format_3477 | edam:format_3477 | Format of the cytoscape input file of gene expression ratios or values are sp... | Title: Cytoscape input file format
| | edam:format_3484 | edam:format_3484 | Bowtie format for indexed reference genome for "small" genomes | Title: ebwt
| | edam:format_3485 | edam:format_3485 | Rich sequence format | Title: RSF
| | edam:format_3486 | edam:format_3486 | Some format based on the GCG format | Title: GCG format variant
| | edam:format_3487 | edam:format_3487 | Bioinformatics Sequence Markup Language format | Title: BSML
| | edam:format_3491 | edam:format_3491 | Bowtie format for indexed reference genome for "large" genomes | Title: ebwtl
| | edam:format_3499 | edam:format_3499 | Ensembl standard format for variation data | Title: Ensembl variation file format
| | edam:format_3506 | edam:format_3506 | Microsoft Word format | Title: docx
| | edam:format_3507 | edam:format_3507 | Format of documents including word processor, spreadsheet and presentation | Title: Document format
| | edam:format_3508 | edam:format_3508 | Portable Document Format | Title: PDF
| | edam:format_3547 | edam:format_3547 | Format used for images and image metadata | Title: Image format
| | edam:format_3548 | edam:format_3548 | Medical image format corresponding to the Digital Imaging and Communications ... | Title: DICOM format
| | edam:format_3549 | edam:format_3549 | An open file format from the Neuroimaging Informatics Technology Initiative (... | Title: nii
| | edam:format_3550 | edam:format_3550 | Text-based tagged file format for medical images generated using the MetaImag... | Title: mhd
| | edam:format_3551 | edam:format_3551 | Nearly Raw Rasta Data format designed to support scientific visualisation and... | Title: nrrd
| | edam:format_3554 | edam:format_3554 | File format used for scripts written in the R programming language for execut... | Title: R file format
| | edam:format_3555 | edam:format_3555 | File format used for scripts for the Statistical Package for the Social Scien... | Title: SPSS
| | edam:format_3556 | edam:format_3556 | MIME HTML format for Web pages, which can include external resources, includi... | Title: MHTML
| | edam:format_3578 | edam:format_3578 | Proprietary file format for (raw) BeadArray data used by genomewide profiling... | Title: IDAT
| | edam:format_3579 | edam:format_3579 | Joint Picture Group file format for lossy graphics file | Title: JPG
| | edam:format_3580 | edam:format_3580 | Reporter Code Count-A data file ( | Title: rcc
| | edam:format_3581 | edam:format_3581 | ARFF (Attribute-Relation File Format) is an ASCII text file format that descr... | Title: arff
| | edam:format_3582 | edam:format_3582 | AFG is a single text-based file assembly format that holds read and consensus... | Title: afg
| | edam:format_3583 | edam:format_3583 | The bedGraph format allows display of continuous-valued data in track format | Title: bedgraph
| | edam:format_3584 | edam:format_3584 | Browser Extensible Data (BED) format of sequence annotation track that strict... | Title: bedstrict
| | edam:format_3585 | edam:format_3585 | BED file format where each feature is described by chromosome, start, end, na... | Title: bed6
| | edam:format_3586 | edam:format_3586 | A BED file where each feature is described by all twelve columns | Title: bed12
| | edam:format_3587 | edam:format_3587 | Tabular format of chromosome names and sizes used by Galaxy | Title: chrominfo
| | edam:format_3588 | edam:format_3588 | Custom Sequence annotation track format used by Galaxy | Title: customtrack
| | edam:format_3589 | edam:format_3589 | Color space FASTA format sequence variant | Title: csfasta
| | edam:format_3590 | edam:format_3590 | HDF5 is a data model, library, and file format for storing and managing data,... | Title: HDF5
| | edam:format_3591 | edam:format_3591 | A versatile bitmap format | Title: TIFF
| | edam:format_3592 | edam:format_3592 | Standard bitmap storage format in the Microsoft Windows environment | Title: BMP
| | edam:format_3593 | edam:format_3593 | IM is a format used by LabEye and other applications based on the IFUNC image... | Title: im
| | edam:format_3594 | edam:format_3594 | Photo CD format, which is the highest resolution format for images on a CD | Title: pcd
| | edam:format_3595 | edam:format_3595 | PCX is an image file format that uses a simple form of run-length encoding | Title: pcx
| | edam:format_3596 | edam:format_3596 | The PPM format is a lowest common denominator color image file format | Title: ppm
| | edam:format_3597 | edam:format_3597 | PSD (Photoshop Document) is a proprietary file that allows the user to work w... | Title: psd
| | edam:format_3598 | edam:format_3598 | X BitMap is a plain text binary image format used by the X Window System used... | Title: xbm
| | edam:format_3599 | edam:format_3599 | X PixMap (XPM) is an image file format used by the X Window System, it is int... | Title: xpm
| | edam:format_3600 | edam:format_3600 | RGB file format is the native raster graphics file format for Silicon Graphic... | Title: rgb
| | edam:format_3601 | edam:format_3601 | The PBM format is a lowest common denominator monochrome file format | Title: pbm
| | edam:format_3602 | edam:format_3602 | The PGM format is a lowest common denominator grayscale file format | Title: pgm
| | edam:format_3603 | edam:format_3603 | PNG is a file format for image compression | Title: PNG
| | edam:format_3604 | edam:format_3604 | Scalable Vector Graphics (SVG) is an XML-based vector image format for two-di... | Title: SVG
| | edam:format_3605 | edam:format_3605 | Sun Raster is a raster graphics file format used on SunOS by Sun Microsystems | Title: rast
| | edam:format_3606 | edam:format_3606 | Textual report format for sequence quality for reports from sequencing machin... | Title: Sequence quality report format (text)
| | edam:format_3607 | edam:format_3607 | FASTQ format subset for Phred sequencing quality score data only (no sequence... | Title: qual
| | edam:format_3608 | edam:format_3608 | FASTQ format subset for Phred sequencing quality score data only (no sequence... | Title: qualsolexa
| | edam:format_3609 | edam:format_3609 | FASTQ format subset for Phred sequencing quality score data only (no sequence... | Title: qualillumina
| | edam:format_3610 | edam:format_3610 | FASTQ format subset for Phred sequencing quality score data only (no sequence... | Title: qualsolid
| | edam:format_3611 | edam:format_3611 | FASTQ format subset for Phred sequencing quality score data only (no sequence... | Title: qual454
| | edam:format_3612 | edam:format_3612 | Human ENCODE peak format | Title: ENCODE peak format
| | edam:format_3613 | edam:format_3613 | Human ENCODE narrow peak format | Title: ENCODE narrow peak format
| | edam:format_3614 | edam:format_3614 | Human ENCODE broad peak format | Title: ENCODE broad peak format
| | edam:format_3615 | edam:format_3615 | Blocked GNU Zip format | Title: bgzip
| | edam:format_3616 | edam:format_3616 | TAB-delimited genome position file index format | Title: tabix
| | edam:format_3617 | edam:format_3617 | Data format for graph data | Title: Graph format
| | edam:format_3618 | edam:format_3618 | XML-based format used to store graph descriptions within Galaxy | Title: xgmml
| | edam:format_3619 | edam:format_3619 | SIF (simple interaction file) Format - a network/pathway format used for inst... | Title: sif
| | edam:format_3620 | edam:format_3620 | MS Excel spreadsheet format consisting of a set of XML documents stored in a ... | Title: xlsx
| | edam:format_3621 | edam:format_3621 | Data format used by the SQLite database | Title: SQLite format
| | edam:format_3622 | edam:format_3622 | Data format used by the SQLite database conformant to the Gemini schema | Title: Gemini SQLite format
| | edam:format_3624 | edam:format_3624 | An index of a genome database, indexed for use by the snpeff tool | Title: snpeffdb
| | edam:format_3626 | edam:format_3626 | Binary format used by MATLAB files to store workspace variables | Title: MAT
| | edam:format_3650 | edam:format_3650 | Format used by netCDF software library for writing and reading chromatography... | Title: NetCDF
| | edam:format_3651 | edam:format_3651 | Mascot Generic Format | Title: MGF
| | edam:format_3652 | edam:format_3652 | Spectral data format file where each spectrum is written to a separate file | Title: dta
| | edam:format_3653 | edam:format_3653 | Spectral data file similar to dta | Title: pkl
| | edam:format_3654 | edam:format_3654 | Common file format for proteomics mass spectrometric data developed at the Se... | Title: mzXML
| | edam:format_3655 | edam:format_3655 | Open data format for the storage, exchange, and processing of peptide sequenc... | Title: pepXML
| | edam:format_3657 | edam:format_3657 | Graphical Pathway Markup Language (GPML) is an XML format used for exchanging... | Title: GPML
| | edam:format_3665 | edam:format_3665 | A list of k-mers and their occurrences in a dataset | Title: K-mer countgraph
| | edam:format_3681 | edam:format_3681 | mzTab is a light-weight, tab-delimited format for mass spectrometry-based pro... | Title: mzTab
| | edam:format_3682 | edam:format_3682 | imzML metadata is a data format for mass spectrometry imaging metadata | Title: imzML metadata file
| | edam:format_3683 | edam:format_3683 | qcML is an XML format for quality-related data of mass spectrometry and other... | Title: qcML
| | edam:format_3684 | edam:format_3684 | PRIDE XML is an XML format for mass spectra, peptide and protein identificati... | Title: PRIDE XML
| | edam:format_3685 | edam:format_3685 | Simulation Experiment Description Markup Language (SED-ML) is an XML format f... | Title: SED-ML
| | edam:format_3686 | edam:format_3686 | Open Modeling EXchange format (OMEX) is a ZIPped format for encapsulating all... | Title: COMBINE OMEX
| | edam:format_3687 | edam:format_3687 | ISA-Tab stands for Investigation / Study / Assay (ISA) tab-delimited (Tab) fo... | Title: ISA-Tab
| | edam:format_3688 | edam:format_3688 | SBtab is a tabular format for biochemical network models | Title: SBtab
| | edam:format_3689 | edam:format_3689 | Biological Connection Markup Language (BCML) is an XML format for biological ... | Title: BCML
| | edam:format_3690 | edam:format_3690 | Biological Dynamics Markup Language (BDML) is an XML format for quantitative ... | Title: BDML
| | edam:format_3691 | edam:format_3691 | Biological Expression Language (BEL) is a textual format for representing sci... | Title: BEL
| | edam:format_3692 | edam:format_3692 | SBGN-ML is an XML format for Systems Biology Graphical Notation (SBGN) diagra... | Title: SBGN-ML
| | edam:format_3693 | edam:format_3693 | AGP is a tabular format for a sequence assembly (a contig, a scaffold/superco... | Title: AGP
| | edam:format_3696 | edam:format_3696 | PostScript format | Title: PS
| | edam:format_3698 | edam:format_3698 | SRA archive format (SRA) is the archive format used for input to the NCBI Seq... | Title: SRA format
| | edam:format_3699 | edam:format_3699 | VDB ('vertical database') is the native format used for export from the NCBI ... | Title: VDB
| | edam:format_3701 | edam:format_3701 | A five-column, tab-delimited table of feature locations and qualifiers for im... | Title: Sequin format
| | edam:format_3702 | edam:format_3702 | Proprietary mass-spectrometry format of Thermo Scientific's ProteomeDiscovere... | Title: MSF
| | edam:format_3706 | edam:format_3706 | Data format for biodiversity data | Title: Biodiversity data format
| | edam:format_3708 | edam:format_3708 | Exchange format of the Access to Biological Collections Data (ABCD) Schema; a... | Title: ABCD format
| | edam:format_3709 | edam:format_3709 | Tab-delimited text files of GenePattern that contain a column for each sample... | Title: GCT/Res format
| | edam:format_3710 | edam:format_3710 | Mass spectrum file format from QSTAR and QTRAP instruments (ABI/Sciex) | Title: WIFF format
| | edam:format_3711 | edam:format_3711 | Output format used by X! series search engines that is based on the XML langu... | Title: X!Tandem XML
| | edam:format_3712 | edam:format_3712 | Proprietary file format for mass spectrometry data from Thermo Scientific | Title: Thermo RAW
| | edam:format_3713 | edam:format_3713 | "Raw" result file from Mascot database search | Title: Mascot .dat file
| | edam:format_3714 | edam:format_3714 | Format of peak list files from Andromeda search engine (MaxQuant) that consis... | Title: MaxQuant APL peaklist format
| | edam:format_3725 | edam:format_3725 | Synthetic Biology Open Language (SBOL) is an XML format for the specification... | Title: SBOL
| | edam:format_3726 | edam:format_3726 | PMML uses XML to represent mining models | Title: PMML
| | edam:format_3727 | edam:format_3727 | Image file format used by the Open Microscopy Environment (OME) | Title: OME-TIFF
| | edam:format_3728 | edam:format_3728 | The LocARNA PP format combines sequence or alignment information and (respect... | Title: LocARNA PP
| | edam:format_3729 | edam:format_3729 | Input format used by the Database of Genotypes and Phenotypes (dbGaP) | Title: dbGaP format
| | edam:format_3746 | edam:format_3746 | The BIological Observation Matrix (BIOM) is a format for representing biologi... | Title: BIOM format
| | edam:format_3747 | edam:format_3747 | A format for storage, exchange, and processing of protein identifications cre... | Title: protXML
| | edam:format_3748 | edam:format_3748 | A linked data format enables publishing structured data as linked data (Linke... | Title: Linked data format
| | edam:format_3749 | edam:format_3749 | JSON-LD, or JavaScript Object Notation for Linked Data, is a method of encodi... | Title: JSON-LD
| | edam:format_3750 | edam:format_3750 | YAML (YAML Ain't Markup Language) is a human-readable tree-structured data se... | Title: YAML
| | edam:format_3751 | edam:format_3751 | Tabular data represented as values in a text file delimited by some character | Title: DSV
| | edam:format_3752 | edam:format_3752 | Tabular data represented as comma-separated values in a text file | Title: CSV
| | edam:format_3758 | edam:format_3758 | "Raw" result file from SEQUEST database search | Title: SEQUEST .out file
| | edam:format_3764 | edam:format_3764 | XML file format for files containing information about peptide identification... | Title: idXML
| | edam:format_3765 | edam:format_3765 | Data table formatted such that it can be passed/streamed within the KNIME pla... | Title: KNIME datatable format
| | edam:format_3770 | edam:format_3770 | UniProtKB XML sequence features format is an XML format available for downloa... | Title: UniProtKB XML
| | edam:format_3771 | edam:format_3771 | UniProtKB RDF sequence features format is an RDF format available for downloa... | Title: UniProtKB RDF
| | edam:format_3772 | edam:format_3772 | BioJSON is a BioXSD-schema-based JSON format of sequence-based data and some ... | Title: BioJSON (BioXSD)
| | edam:format_3773 | edam:format_3773 | BioYAML is a BioXSD-schema-based YAML format of sequence-based data and some ... | Title: BioYAML
| | edam:format_3774 | edam:format_3774 | BioJSON is a JSON format of single multiple sequence alignments, with their a... | Title: BioJSON (Jalview)
| | edam:format_3775 | edam:format_3775 | GSuite is a tabular format for collections of genome or sequence feature trac... | Title: GSuite
| | edam:format_3776 | edam:format_3776 | BTrack is an HDF5-based binary format for genome or sequence feature tracks a... | Title: BTrack
| | edam:format_3777 | edam:format_3777 | The FAO/Bioversity/IPGRI Multi-Crop Passport Descriptors (MCPD) is an interna... | Title: MCPD
| | edam:format_3780 | edam:format_3780 | Data format of an annotated text, e | Title: Annotated text format
| | edam:format_3781 | edam:format_3781 | JSON format of annotated scientific text used by PubAnnotations and other too... | Title: PubAnnotation format
| | edam:format_3782 | edam:format_3782 | BioC is a standardised XML format for sharing and integrating text data and a... | Title: BioC
| | edam:format_3783 | edam:format_3783 | Native textual export format of annotated scientific text from PubTator | Title: PubTator format
| | edam:format_3784 | edam:format_3784 | A format of text annotation using the linked-data Open Annotation Data Model,... | Title: Open Annotation format
| | edam:format_3785 | edam:format_3785 | A family of similar formats of text annotation, used by BRAT and other tools,... | Title: BioNLP Shared Task format
| | edam:format_3787 | edam:format_3787 | A query language (format) for structured database queries | Title: Query language
| | edam:format_3788 | edam:format_3788 | SQL (Structured Query Language) is the de-facto standard query language (form... | Title: SQL
| | edam:format_3789 | edam:format_3789 | XQuery (XML Query) is a query language (format of queries) for querying and m... | Title: XQuery
| | edam:format_3790 | edam:format_3790 | SPARQL (SPARQL Protocol and RDF Query Language) is a semantic query language ... | Title: SPARQL
| | edam:format_3804 | edam:format_3804 | XML format for XML Schema | Title: xsd
| | edam:format_3811 | edam:format_3811 | XMFA format stands for eXtended Multi-FastA format and is used to store colli... | Title: XMFA
| | edam:format_3812 | edam:format_3812 | The GEN file format contains genetic data and describes SNPs | Title: GEN
| | edam:format_3813 | edam:format_3813 | The SAMPLE file format contains information about each individual i | Title: SAMPLE file format
| | edam:format_3814 | edam:format_3814 | SDF is one of a family of chemical-data file formats developed by MDL Informa... | Title: SDF
| | edam:format_3815 | edam:format_3815 | An MDL Molfile is a file format for holding information about the atoms, bond... | Title: Molfile
| | edam:format_3816 | edam:format_3816 | Complete, portable representation of a SYBYL molecule | Title: Mol2
| | edam:format_3817 | edam:format_3817 | format for the LaTeX document preparation system | Title: latex
| | edam:format_3818 | edam:format_3818 | Tab-delimited text file format used by Eland - the read-mapping program distr... | Title: ELAND format
| | edam:format_3819 | edam:format_3819 | Phylip multiple alignment sequence format, less stringent than PHYLIP format | Title: Relaxed PHYLIP Interleaved
| | edam:format_3820 | edam:format_3820 | Phylip multiple alignment sequence format, less stringent than PHYLIP sequent... | Title: Relaxed PHYLIP Sequential
| | edam:format_3821 | edam:format_3821 | Default XML format of VisANT, containing all the network information | Title: VisML
| | edam:format_3822 | edam:format_3822 | GML (Graph Modeling Language) is a text file format supporting network data w... | Title: GML
| | edam:format_3823 | edam:format_3823 | FASTG is a format for faithfully representing genome assemblies in the face o... | Title: FASTG
| | edam:format_3824 | edam:format_3824 | Data format for raw data from a nuclear magnetic resonance (NMR) spectroscopy... | Title: NMR data format
| | edam:format_3825 | edam:format_3825 | nmrML is an MSI supported XML-based open access format for metabolomics NMR r... | Title: nmrML
| | edam:format_3826 | edam:format_3826 | | Title: proBAM
| | edam:format_3827 | edam:format_3827 | | Title: proBED
| | edam:format_3828 | edam:format_3828 | Data format for raw microarray data | Title: Raw microarray data format
| | edam:format_3829 | edam:format_3829 | GenePix Results (GPR) text file format developed by Axon Instruments that is ... | Title: GPR
| | edam:format_3830 | edam:format_3830 | Binary format used by the ARB software suite | Title: ARB
| | edam:format_3832 | edam:format_3832 | OpenMS format for grouping features in one map or across several maps | Title: consensusXML
| | edam:format_3833 | edam:format_3833 | OpenMS format for quantitation results (LC/MS features) | Title: featureXML
| | edam:format_3834 | edam:format_3834 | Now deprecated data format of the HUPO Proteomics Standards Initiative | Title: mzData
| | edam:format_3835 | edam:format_3835 | Format supported by the Tide tool for identifying peptides from tandem mass s... | Title: TIDE TXT
| | edam:format_3836 | edam:format_3836 | XML format as produced by the NCBI Blast package v2 | Title: BLAST XML v2 results format
| | edam:format_3838 | edam:format_3838 | Microsoft Powerpoint format | Title: pptx
| | edam:format_3839 | edam:format_3839 | ibd is a data format for mass spectrometry imaging data | Title: ibd
| | edam:format_3841 | edam:format_3841 | Data format used in Natural Language Processing | Title: NLP format
| | edam:format_3843 | edam:format_3843 | XML input file format for BEAST Software (Bayesian Evolutionary Analysis Samp... | Title: BEAST
| | edam:format_3844 | edam:format_3844 | Chado-XML format is a direct mapping of the Chado relational schema into XML | Title: Chado-XML
| | edam:format_3845 | edam:format_3845 | An alignment format generated by PRANK/PRANKSTER consisting of four elements:... | Title: HSAML
| | edam:format_3846 | edam:format_3846 | Output xml file from the InterProScan sequence analysis application | Title: InterProScan XML
| | edam:format_3847 | edam:format_3847 | The KEGG Markup Language (KGML) is an exchange format of the KEGG pathway map... | Title: KGML
| | edam:format_3848 | edam:format_3848 | XML format for collected entries from bibliographic databases MEDLINE and Pub... | Title: PubMed XML
| | edam:format_3849 | edam:format_3849 | A set of XML compliant markup components for describing multiple sequence ali... | Title: MSAML
| | edam:format_3850 | edam:format_3850 | OrthoXML is designed broadly to allow the storage and comparison of orthology... | Title: OrthoXML
| | edam:format_3851 | edam:format_3851 | Tree structure of Protein Sequence Database Markup Language generated using M... | Title: PSDML
| | edam:format_3852 | edam:format_3852 | SeqXML is an XML Schema to describe biological sequences, developed by the St... | Title: SeqXML
| | edam:format_3853 | edam:format_3853 | XML format for the UniParc database | Title: UniParc XML
| | edam:format_3854 | edam:format_3854 | XML format for the UniRef reference clusters | Title: UniRef XML
| | edam:format_3857 | edam:format_3857 | Common Workflow Language (CWL) format for description of command-line tools a... | Title: CWL
| | edam:format_3858 | edam:format_3858 | Proprietary file format for mass spectrometry data from Waters | Title: Waters RAW
| | edam:format_3859 | edam:format_3859 | A standardized file format for data exchange in mass spectrometry, initially ... | Title: JCAMP-DX
| | edam:format_3862 | edam:format_3862 | An NLP format used for annotated textual documents | Title: NLP annotation format
| | edam:format_3863 | edam:format_3863 | NLP format used by a specific type of corpus (collection of texts) | Title: NLP corpus format
| | edam:format_3864 | edam:format_3864 | mirGFF3 is a common format for microRNA data resulting from small-RNA RNA-Seq... | Title: mirGFF3
| | edam:format_3865 | edam:format_3865 | A "placeholder" concept for formats of annotated RNA data, including e | Title: RNA annotation format
| | edam:format_3866 | edam:format_3866 | File format to store trajectory information for a 3D structure | Title: Trajectory format
| | edam:format_3867 | edam:format_3867 | Binary file format to store trajectory information for a 3D structure | Title: Trajectory format (binary)
| | edam:format_3868 | edam:format_3868 | Textual file format to store trajectory information for a 3D structure | Title: Trajectory format (text)
| | edam:format_3873 | edam:format_3873 | HDF is the name of a set of file formats and libraries designed to store and ... | Title: HDF
| | edam:format_3874 | edam:format_3874 | PCAZip format is a binary compressed file to store atom coordinates based on ... | Title: PCAzip
| | edam:format_3875 | edam:format_3875 | Portable binary format for trajectories produced by GROMACS package | Title: XTC
| | edam:format_3876 | edam:format_3876 | Trajectory Next Generation (TNG) is a format for storage of molecular simulat... | Title: TNG
| | edam:format_3877 | edam:format_3877 | The XYZ chemical file format is widely supported by many programs, although m... | Title: XYZ
| | edam:format_3878 | edam:format_3878 | AMBER trajectory (also called mdcrd), with 10 coordinates per line and format... | Title: mdcrd
| | edam:format_3879 | edam:format_3879 | Format of topology files; containing the static information of a structure mo... | Title: Topology format
| | edam:format_3880 | edam:format_3880 | GROMACS MD package top textual files define an entire structure system topolo... | Title: GROMACS top
| | edam:format_3881 | edam:format_3881 | AMBER Prmtop file (version 7) is a structure topology text file divided in se... | Title: AMBER top
| | edam:format_3882 | edam:format_3882 | X-Plor Protein Structure Files (PSF) are structure topology files used by NAM... | Title: PSF
| | edam:format_3883 | edam:format_3883 | GROMACS itp files (include topology) contain structure topology information, ... | Title: GROMACS itp
| | edam:format_3884 | edam:format_3884 | Format of force field parameter files, which store the set of parameters (cha... | Title: FF parameter format
| | edam:format_3885 | edam:format_3885 | Scripps Research Institute BinPos format is a binary formatted file to store ... | Title: BinPos
| | edam:format_3886 | edam:format_3886 | AMBER coordinate/restart file with 6 coordinates per line and decimal format ... | Title: RST
| | edam:format_3887 | edam:format_3887 | Format of CHARMM Residue Topology Files (RTF), which define groups by includi... | Title: CHARMM rtf
| | edam:format_3888 | edam:format_3888 | AMBER frcmod (Force field Modification) is a file format to store any modific... | Title: AMBER frcmod
| | edam:format_3889 | edam:format_3889 | AMBER Object File Format library files (OFF library files) store residue libr... | Title: AMBER off
| | edam:format_3906 | edam:format_3906 | MReData is a text based data standard for processed NMR data | Title: NMReDATA
| | edam:format_3909 | edam:format_3909 | BpForms is a string format for concretely representing the primary structures... | Title: BpForms
| | edam:format_3910 | edam:format_3910 | Format of trr files that contain the trajectory of a simulation experiment us... | Title: trr
| | edam:format_3911 | edam:format_3911 | Mash sketch is a format for sequence / sequence checksum information | Title: msh
| | edam:format_3913 | edam:format_3913 | The Loom file format is based on HDF5, a standard for storing large numerical... | Title: Loom
| | edam:format_3915 | edam:format_3915 | The Zarr format is an implementation of chunked, compressed, N-dimensional ar... | Title: Zarr
| | edam:format_3916 | edam:format_3916 | The Matrix Market matrix (MTX) format stores numerical or pattern matrices in... | Title: MTX
| | edam:format_3951 | edam:format_3951 | BcForms is a format for abstractly describing the molecular structure (atoms ... | Title: BcForms
| | edam:format_3956 | edam:format_3956 | N-Quads is a line-based, plain text format for encoding an RDF dataset | Title: N-Quads
| | edam:format_3969 | edam:format_3969 | Vega is a visualization grammar, a declarative language for creating, saving,... | Title: Vega
| | edam:format_3970 | edam:format_3970 | Vega-Lite is a high-level grammar of interactive graphics | Title: Vega-lite
| | edam:format_3971 | edam:format_3971 | A model description language for computational neuroscience | Title: NeuroML
| | edam:format_3972 | edam:format_3972 | BioNetGen is a format for the specification and simulation of rule-based mode... | Title: BNGL
| | edam:format_3973 | edam:format_3973 | A Docker image is a file, comprised of multiple layers, that is used to execu... | Title: Docker image
| | edam:format_3975 | edam:format_3975 | Graphical Fragment Assembly captures sequence graphs as the product of an ass... | Title: GFA 1
| | edam:format_3976 | edam:format_3976 | Graphical Fragment Assembly captures sequence graphs as the product of an ass... | Title: GFA 2
| | edam:format_3977 | edam:format_3977 | ObjTables is a toolkit for creating reusable datasets that are both human and... | Title: ObjTables
| | edam:format_3978 | edam:format_3978 | The CONTIG format used for output of the SOAPdenovo alignment program | Title: CONTIG
| | edam:format_3979 | edam:format_3979 | WEGO native format used by the Web Gene Ontology Annotation Plot application | Title: WEGO
| | edam:format_3980 | edam:format_3980 | Tab-delimited format for gene expression levels table, calculated as Reads Pe... | Title: RPKM
| | edam:format_3981 | edam:format_3981 | TAR archive file format generated by the Unix-based utility tar | Title: TAR format
| | edam:format_3982 | edam:format_3982 | The CHAIN format describes a pairwise alignment that allow gaps in both seque... | Title: CHAIN
| | edam:format_3983 | edam:format_3983 | The NET file format is used to describe the data that underlie the net alignm... | Title: NET
| | edam:format_3984 | edam:format_3984 | Format of QMAP files generated for methylation data from an internal BGI pipe... | Title: QMAP
| | edam:format_3985 | edam:format_3985 | An emerging format for high-level Galaxy workflow description | Title: gxformat2
| | edam:format_3986 | edam:format_3986 | The proprietary native video format of various Microsoft programs such as Win... | Title: WMV
| | edam:format_3987 | edam:format_3987 | ZIP is an archive file format that supports lossless data compression | Title: ZIP format
| | edam:format_3988 | edam:format_3988 | Zeiss' proprietary image format based on TIFF | Title: LSM
| | edam:format_3989 | edam:format_3989 | GNU zip compressed file format common to Unix-based operating systems | Title: GZIP format
| | edam:format_3990 | edam:format_3990 | Audio Video Interleaved (AVI) format is a multimedia container format for AVI... | Title: AVI
| | edam:format_3991 | edam:format_3991 | A declaration file format for UCSC browsers track dataset display characteris... | Title: TrackDB
| | edam:format_3992 | edam:format_3992 | Compact Idiosyncratic Gapped Alignment Report format is a compressed (run-len... | Title: CIGAR format
| | edam:format_3993 | edam:format_3993 | STL is a file format native to the stereolithography CAD software created by ... | Title: Stereolithography format
| | edam:format_3994 | edam:format_3994 | U3D (Universal 3D) is a compressed file format and data structure for 3D comp... | Title: U3D
| | edam:format_3995 | edam:format_3995 | Bitmap image format used for storing textures | Title: Texture file format
| | edam:format_3996 | edam:format_3996 | Format for scripts writtenin Python - a widely used high-level programming la... | Title: Python script
| | edam:format_3997 | edam:format_3997 | A digital multimedia container format most commonly used to store video and a... | Title: MPEG-4
| | edam:format_3998 | edam:format_3998 | Format for scripts written in Perl - a family of high-level, general-purpose,... | Title: Perl script
| | edam:format_3999 | edam:format_3999 | Format for scripts written in the R language - an open source programming lan... | Title: R script
| | edam:format_4000 | edam:format_4000 | A file format for making dynamic documents (R Markdown scripts) with the R la... | Title: R markdown
| | edam:format_4002 | edam:format_4002 | Format used by Python pickle module for serializing and de-serializing a Pyth... | Title: pickle
| | edam:format_4003 | edam:format_4003 | The standard binary file format used by NumPy - a fundamental package for sci... | Title: NumPy format
| | edam:format_4004 | edam:format_4004 | Format of repertoire (archive) files that can be read by SimToolbox (a MATLAB... | Title: SimTools repertoire file format
| | edam:format_4005 | edam:format_4005 | A configuration file used by various programs to store settings that are spec... | Title: Configuration file format
| | edam:format_4006 | edam:format_4006 | Format used by the Zstandard real-time compression algorithm | Title: Zstandard format
| | edam:format_4007 | edam:format_4007 | The file format for MATLAB scripts or functions | Title: MATLAB script
| | edam:format_4015 | edam:format_4015 | A data format for specifying parameter estimation problems in systems biology | Title: PEtab
| | edam:format_4018 | edam:format_4018 | Genomic Variant Call Format (gVCF) is a version of VCF that includes not only... | Title: gVCF
| | edam:format_4023 | edam:format_4023 | Chemical Markup Language (CML) is an XML-based format for encoding detailed i... | Title: cml
| | edam:format_4024 | edam:format_4024 | Crystallographic Information File (CIF) is a data exchange standard file form... | Title: cif
| | edam:format_4025 | edam:format_4025 | Format for describing the capabilities of a biosimulation tool including the ... | Title: BioSimulators format for the specifications of biosimulation tools
| | edam:format_4026 | edam:format_4026 | Outlines the syntax and semantics of the input and output arguments for comma... | Title: BioSimulators standard for command-line interfaces for biosimulation tools
| | edam:format_4035 | edam:format_4035 | Data format derived from the standard PDB format, which enables user to incor... | Title: PQR
| | edam:format_4036 | edam:format_4036 | Data format used in AutoDock 4 for storing atomic coordinates, partial atomic... | Title: PDBQT
| | edam:format_4039 | edam:format_4039 | MSP is a data format for mass spectrometry data | Title: MSP
| | edam:format_4041 | edam:format_4041 | maDMP stands for machine-actionable data management plan, a standard for DMPs... | Title: maDMP
| | edam:format_4048 | edam:format_4048 | Nextflow is a workflow system for creating scalable, portable, and reproducib... | Title: Nextflow
| | edam:format_4049 | edam:format_4049 | The Snakemake workflow management system is a tool to create reproducible and... | Title: Snakemake
| | edam:format_4050 | edam:format_4050 | Sample and Data Relationship File for a proteomics experiment | Title: SDRF
| | edam:format_4058 | edam:format_4058 | mzTab-M is a light-weight, tab-delimited format for mass spectrometry-based c... | Title: mzTab-M
| | edam:format_4059 | edam:format_4059 | mzTab-L is a light-weight, tab-delimited format for mass spectrometry-based l... | Title: mzTab-L
| | edam:format_4066 | edam:format_4066 | ISA-Tab Investigation file (i_Investigation | Title: ISA-Tab Investigation file
| | edam:format_4067 | edam:format_4067 | ISA-Tab Study file (s_* | Title: ISA-Tab Study file
| | edam:format_4068 | edam:format_4068 | ISA-Tab Assay file (a_* | Title: ISA-Tab Assay file
| | edam:format_4069 | edam:format_4069 | ISA-JSON stands for Investigation / Study / Assay (ISA) JavaScript Object Not... | Title: ISA-JSON
| | edam:format_4070 | edam:format_4070 | mwTab is a tab-delimited text format developed by the Metabolomics Workbench ... | Title: mwTab
| | edam:format_4071 | edam:format_4071 | MHD (MetabolomicsHub Common Data Model) is a JSON-based format providing a st... | Title: MHD
| | edam:format_4072 | edam:format_4072 | The MHD announcement file is a JSON-based format used to notify MetabolomicsH... | Title: MHD announcement
| | edam:format_4073 | edam:format_4073 | MetaboLights MAF (Metabolite Annotation File) is a tab-separated file format ... | Title: MetaboLights MAF
| ## Slots | Name | Description | | --- | --- | | [format](format.md) | The format of the file | ## Identifier and Mapping Information ### Schema Source * from schema: https://includedcc.org/include-access-model ## LinkML Source

name: EnumEDAMFormats
description: Data formats from the EDAM ontology.
from_schema: https://includedcc.org/include-access-model
rank: 1000
permissible_values:
  edam:format_1196:
    text: edam:format_1196
    description: Chemical structure specified in Simplified Molecular Input Line Entry
      System (SMILES) line notation.
    meaning: edam:format_1196
    title: SMILES
  edam:format_1197:
    text: edam:format_1197
    description: Chemical structure specified in IUPAC International Chemical Identifier
      (InChI) line notation.
    meaning: edam:format_1197
    title: InChI
  edam:format_1198:
    text: edam:format_1198
    description: Chemical structure specified by Molecular Formula (MF), including
      a count of each element in a compound.
    meaning: edam:format_1198
    title: mf
  edam:format_1199:
    text: edam:format_1199
    description: The InChIKey (hashed InChI) is a fixed length (25 character) condensed
      digital representation of an InChI chemical structure specification. It uniquely
      identifies a chemical compound.
    meaning: edam:format_1199
    title: InChIKey
  edam:format_1200:
    text: edam:format_1200
    description: SMILES ARbitrary Target Specification (SMARTS) format for chemical
      structure specification, which is a subset of the SMILES line notation.
    meaning: edam:format_1200
    title: smarts
  edam:format_1206:
    text: edam:format_1206
    description: Alphabet for a molecular sequence with possible unknown positions
      but without ambiguity or non-sequence characters.
    meaning: edam:format_1206
    title: unambiguous pure
  edam:format_1207:
    text: edam:format_1207
    description: Alphabet for a nucleotide sequence with possible ambiguity, unknown
      positions and non-sequence characters.
    meaning: edam:format_1207
    title: nucleotide
  edam:format_1208:
    text: edam:format_1208
    description: Alphabet for a protein sequence with possible ambiguity, unknown
      positions and non-sequence characters.
    meaning: edam:format_1208
    title: protein
  edam:format_1209:
    text: edam:format_1209
    description: Alphabet for the consensus of two or more molecular sequences.
    meaning: edam:format_1209
    title: consensus
  edam:format_1210:
    text: edam:format_1210
    description: Alphabet for a nucleotide sequence with possible ambiguity and unknown
      positions but without non-sequence characters.
    meaning: edam:format_1210
    title: pure nucleotide
  edam:format_1211:
    text: edam:format_1211
    description: Alphabet for a nucleotide sequence (characters ACGTU only) with possible
      unknown positions but without ambiguity or non-sequence characters .
    meaning: edam:format_1211
    title: unambiguous pure nucleotide
  edam:format_1212:
    text: edam:format_1212
    description: Alphabet for a DNA sequence with possible ambiguity, unknown positions
      and non-sequence characters.
    meaning: edam:format_1212
    title: dna
  edam:format_1213:
    text: edam:format_1213
    description: Alphabet for an RNA sequence with possible ambiguity, unknown positions
      and non-sequence characters.
    meaning: edam:format_1213
    title: rna
  edam:format_1214:
    text: edam:format_1214
    description: Alphabet for a DNA sequence (characters ACGT only) with possible
      unknown positions but without ambiguity or non-sequence characters.
    meaning: edam:format_1214
    title: unambiguous pure dna
  edam:format_1215:
    text: edam:format_1215
    description: Alphabet for a DNA sequence with possible ambiguity and unknown positions
      but without non-sequence characters.
    meaning: edam:format_1215
    title: pure dna
  edam:format_1216:
    text: edam:format_1216
    description: Alphabet for an RNA sequence (characters ACGU only) with possible
      unknown positions but without ambiguity or non-sequence characters.
    meaning: edam:format_1216
    title: unambiguous pure rna sequence
  edam:format_1217:
    text: edam:format_1217
    description: Alphabet for an RNA sequence with possible ambiguity and unknown
      positions but without non-sequence characters.
    meaning: edam:format_1217
    title: pure rna
  edam:format_1218:
    text: edam:format_1218
    description: Alphabet for any protein sequence with possible unknown positions
      but without ambiguity or non-sequence characters.
    meaning: edam:format_1218
    title: unambiguous pure protein
  edam:format_1219:
    text: edam:format_1219
    description: Alphabet for any protein sequence with possible ambiguity and unknown
      positions but without non-sequence characters.
    meaning: edam:format_1219
    title: pure protein
  edam:format_1248:
    text: edam:format_1248
    description: Format for sequence positions (feature location) as used in DDBJ/EMBL/GenBank
      database.
    meaning: edam:format_1248
    title: EMBL feature location
  edam:format_1295:
    text: edam:format_1295
    description: Report format for tandem repeats in a nucleotide sequence (format
      generated by the Sanger Centre quicktandem program).
    meaning: edam:format_1295
    title: quicktandem
  edam:format_1296:
    text: edam:format_1296
    description: Report format for inverted repeats in a nucleotide sequence (format
      generated by the Sanger Centre inverted program).
    meaning: edam:format_1296
    title: Sanger inverted repeats
  edam:format_1297:
    text: edam:format_1297
    description: Report format for tandem repeats in a sequence (an EMBOSS report
      format).
    meaning: edam:format_1297
    title: EMBOSS repeat
  edam:format_1316:
    text: edam:format_1316
    description: Format of a report on exon-intron structure generated by EMBOSS est2genome.
    meaning: edam:format_1316
    title: est2genome format
  edam:format_1318:
    text: edam:format_1318
    description: Report format for restriction enzyme recognition sites used by EMBOSS
      restrict program.
    meaning: edam:format_1318
    title: restrict format
  edam:format_1319:
    text: edam:format_1319
    description: Report format for restriction enzyme recognition sites used by EMBOSS
      restover program.
    meaning: edam:format_1319
    title: restover format
  edam:format_1320:
    text: edam:format_1320
    description: Report format for restriction enzyme recognition sites used by REBASE
      database.
    meaning: edam:format_1320
    title: REBASE restriction sites
  edam:format_1332:
    text: edam:format_1332
    description: Format of results of a sequence database search using FASTA.
    meaning: edam:format_1332
    title: FASTA search results format
  edam:format_1333:
    text: edam:format_1333
    description: Format of results of a sequence database search using some variant
      of BLAST.
    meaning: edam:format_1333
    title: BLAST results
  edam:format_1334:
    text: edam:format_1334
    description: Format of results of a sequence database search using some variant
      of MSPCrunch.
    meaning: edam:format_1334
    title: mspcrunch
  edam:format_1335:
    text: edam:format_1335
    description: Format of results of a sequence database search using some variant
      of Smith Waterman.
    meaning: edam:format_1335
    title: Smith-Waterman format
  edam:format_1336:
    text: edam:format_1336
    description: Format of EMBASSY domain hits file (DHF) of hits (sequences) with
      domain classification information.
    meaning: edam:format_1336
    title: dhf
  edam:format_1337:
    text: edam:format_1337
    description: Format of EMBASSY ligand hits file (LHF) of database hits (sequences)
      with ligand classification information.
    meaning: edam:format_1337
    title: lhf
  edam:format_1341:
    text: edam:format_1341
    description: Results format for searches of the InterPro database.
    meaning: edam:format_1341
    title: InterPro hits format
  edam:format_1342:
    text: edam:format_1342
    description: Format of results of a search of the InterPro database showing matches
      of query protein sequence(s) to InterPro entries.
    meaning: edam:format_1342
    title: InterPro protein view report format
  edam:format_1343:
    text: edam:format_1343
    description: Format of results of a search of the InterPro database showing matches
      between protein sequence(s) and signatures for an InterPro entry.
    meaning: edam:format_1343
    title: InterPro match table format
  edam:format_1349:
    text: edam:format_1349
    description: Dirichlet distribution HMMER format.
    meaning: edam:format_1349
    title: HMMER Dirichlet prior
  edam:format_1350:
    text: edam:format_1350
    description: Dirichlet distribution MEME format.
    meaning: edam:format_1350
    title: MEME Dirichlet prior
  edam:format_1351:
    text: edam:format_1351
    description: Format of a report from the HMMER package on the emission and transition
      counts of a hidden Markov model.
    meaning: edam:format_1351
    title: HMMER emission and transition
  edam:format_1356:
    text: edam:format_1356
    description: Format of a regular expression pattern from the Prosite database.
    meaning: edam:format_1356
    title: prosite-pattern
  edam:format_1357:
    text: edam:format_1357
    description: Format of an EMBOSS sequence pattern.
    meaning: edam:format_1357
    title: EMBOSS sequence pattern
  edam:format_1360:
    text: edam:format_1360
    description: A motif in the format generated by the MEME program.
    meaning: edam:format_1360
    title: meme-motif
  edam:format_1366:
    text: edam:format_1366
    description: Sequence profile (sequence classifier) format used in the PROSITE
      database.
    meaning: edam:format_1366
    title: prosite-profile
  edam:format_1367:
    text: edam:format_1367
    description: A profile (sequence classifier) in the format used in the JASPAR
      database.
    meaning: edam:format_1367
    title: JASPAR format
  edam:format_1369:
    text: edam:format_1369
    description: Format of the model of random sequences used by MEME.
    meaning: edam:format_1369
    title: MEME background Markov model
  edam:format_1370:
    text: edam:format_1370
    description: Format of a hidden Markov model representation used by the HMMER
      package.
    meaning: edam:format_1370
    title: HMMER format
  edam:format_1391:
    text: edam:format_1391
    description: FASTA-style format for multiple sequences aligned by HMMER package
      to an HMM.
    meaning: edam:format_1391
    title: HMMER-aln
  edam:format_1392:
    text: edam:format_1392
    description: Format of multiple sequences aligned by DIALIGN package.
    meaning: edam:format_1392
    title: DIALIGN format
  edam:format_1393:
    text: edam:format_1393
    description: EMBASSY 'domain alignment file' (DAF) format, containing a sequence
      alignment of protein domains belonging to the same SCOP or CATH family.
    meaning: edam:format_1393
    title: daf
  edam:format_1419:
    text: edam:format_1419
    description: Format for alignment of molecular sequences to MEME profiles (position-dependent
      scoring matrices) as generated by the MAST tool from the MEME package.
    meaning: edam:format_1419
    title: Sequence-MEME profile alignment
  edam:format_1421:
    text: edam:format_1421
    description: Format used by the HMMER package for an alignment of a sequence against
      a hidden Markov model database.
    meaning: edam:format_1421
    title: HMMER profile alignment (sequences versus HMMs)
  edam:format_1422:
    text: edam:format_1422
    description: Format used by the HMMER package for of an alignment of a hidden
      Markov model against a sequence database.
    meaning: edam:format_1422
    title: HMMER profile alignment (HMM versus sequences)
  edam:format_1423:
    text: edam:format_1423
    description: Format of PHYLIP phylogenetic distance matrix data.
    meaning: edam:format_1423
    title: Phylip distance matrix
  edam:format_1424:
    text: edam:format_1424
    description: Dendrogram (tree file) format generated by ClustalW.
    meaning: edam:format_1424
    title: ClustalW dendrogram
  edam:format_1425:
    text: edam:format_1425
    description: Raw data file format used by Phylip from which a phylogenetic tree
      is directly generated or plotted.
    meaning: edam:format_1425
    title: Phylip tree raw
  edam:format_1430:
    text: edam:format_1430
    description: PHYLIP file format for continuous quantitative character data.
    meaning: edam:format_1430
    title: Phylip continuous quantitative characters
  edam:format_1432:
    text: edam:format_1432
    description: PHYLIP file format for phylogenetics character frequency data.
    meaning: edam:format_1432
    title: Phylip character frequencies format
  edam:format_1433:
    text: edam:format_1433
    description: Format of PHYLIP discrete states data.
    meaning: edam:format_1433
    title: Phylip discrete states format
  edam:format_1434:
    text: edam:format_1434
    description: Format of PHYLIP cliques data.
    meaning: edam:format_1434
    title: Phylip cliques format
  edam:format_1435:
    text: edam:format_1435
    description: Phylogenetic tree data format used by the PHYLIP program.
    meaning: edam:format_1435
    title: Phylip tree format
  edam:format_1436:
    text: edam:format_1436
    description: The format of an entry from the TreeBASE database of phylogenetic
      data.
    meaning: edam:format_1436
    title: TreeBASE format
  edam:format_1437:
    text: edam:format_1437
    description: The format of an entry from the TreeFam database of phylogenetic
      data.
    meaning: edam:format_1437
    title: TreeFam format
  edam:format_1445:
    text: edam:format_1445
    description: Format for distances, such as Branch Score distance, between two
      or more phylogenetic trees as used by the Phylip package.
    meaning: edam:format_1445
    title: Phylip tree distance format
  edam:format_1454:
    text: edam:format_1454
    description: Format of an entry from the DSSP database (Dictionary of Secondary
      Structure in Proteins).
    meaning: edam:format_1454
    title: dssp
  edam:format_1455:
    text: edam:format_1455
    description: Entry format of the HSSP database (Homology-derived Secondary Structure
      in Proteins).
    meaning: edam:format_1455
    title: hssp
  edam:format_1457:
    text: edam:format_1457
    description: Format of RNA secondary structure in dot-bracket notation, originally
      generated by the Vienna RNA package/server.
    meaning: edam:format_1457
    title: Dot-bracket format
  edam:format_1458:
    text: edam:format_1458
    description: Format of local RNA secondary structure components with free energy
      values, generated by the Vienna RNA package/server.
    meaning: edam:format_1458
    title: Vienna local RNA secondary structure format
  edam:format_1475:
    text: edam:format_1475
    description: Format of an entry (or part of an entry) from the PDB database.
    meaning: edam:format_1475
    title: PDB database entry format
  edam:format_1476:
    text: edam:format_1476
    description: Entry format of PDB database in PDB format.
    meaning: edam:format_1476
    title: PDB
  edam:format_1477:
    text: edam:format_1477
    description: Entry format of PDB database in mmCIF format.
    meaning: edam:format_1477
    title: mmCIF
  edam:format_1478:
    text: edam:format_1478
    description: Entry format of PDB database in PDBML (XML) format.
    meaning: edam:format_1478
    title: PDBML
  edam:format_1504:
    text: edam:format_1504
    description: Amino acid index format used by the AAindex database.
    meaning: edam:format_1504
    title: aaindex
  edam:format_1551:
    text: edam:format_1551
    description: Format of output of the Pcons Model Quality Assessment Program (MQAP).
    meaning: edam:format_1551
    title: Pcons report format
  edam:format_1552:
    text: edam:format_1552
    description: Format of output of the ProQ protein model quality predictor.
    meaning: edam:format_1552
    title: ProQ report format
  edam:format_1582:
    text: edam:format_1582
    description: A report format for the kinetics of enzyme-catalysed reaction(s)
      in a format generated by EMBOSS findkm. This includes Michaelis Menten plot,
      Hanes Woolf plot, Michaelis Menten constant (Km) and maximum velocity (Vmax).
    meaning: edam:format_1582
    title: findkm
  edam:format_1627:
    text: edam:format_1627
    description: Report format on PCR primers and hybridisation oligos as generated
      by Whitehead primer3 program.
    meaning: edam:format_1627
    title: Primer3 primer
  edam:format_1628:
    text: edam:format_1628
    description: A format of raw sequence read data from an Applied Biosystems sequencing
      machine.
    meaning: edam:format_1628
    title: ABI
  edam:format_1629:
    text: edam:format_1629
    description: Format of MIRA sequence trace information file.
    meaning: edam:format_1629
    title: mira
  edam:format_1630:
    text: edam:format_1630
    description: Common Assembly Format (CAF). A sequence assembly format including
      contigs, base-call qualities, and other metadata.
    meaning: edam:format_1630
    title: CAF
  edam:format_1631:
    text: edam:format_1631
    description: Sequence assembly project file EXP format.
    meaning: edam:format_1631
    title: EXP
  edam:format_1632:
    text: edam:format_1632
    description: Staden Chromatogram Files format (SCF) of base-called sequence reads,
      qualities, and other metadata.
    meaning: edam:format_1632
    title: SCF
  edam:format_1633:
    text: edam:format_1633
    description: PHD sequence trace format to store serialised chromatogram data (reads).
    meaning: edam:format_1633
    title: PHD
  edam:format_1637:
    text: edam:format_1637
    description: Format of Affymetrix data file of raw image data.
    meaning: edam:format_1637
    title: dat
  edam:format_1638:
    text: edam:format_1638
    description: Format of Affymetrix data file of information about (raw) expression
      levels of the individual probes.
    meaning: edam:format_1638
    title: cel
  edam:format_1639:
    text: edam:format_1639
    description: Format of affymetrix gene cluster files (hc-genes.txt, hc-chips.txt)
      from hierarchical clustering.
    meaning: edam:format_1639
    title: affymetrix
  edam:format_1641:
    text: edam:format_1641
    description: Affymetrix data file format for information about experimental conditions
      and protocols.
    meaning: edam:format_1641
    title: affymetrix-exp
  edam:format_1644:
    text: edam:format_1644
    description: Format of Affymetrix data file of information about (normalised)
      expression levels of the individual probes.
    meaning: edam:format_1644
    title: CHP
  edam:format_1665:
    text: edam:format_1665
    description: Format of Taverna workflows.
    meaning: edam:format_1665
    title: Taverna workflow format
  edam:format_1705:
    text: edam:format_1705
    description: The format of an entry from the HET group dictionary (HET groups
      from PDB files).
    meaning: edam:format_1705
    title: HET group dictionary entry format
  edam:format_1734:
    text: edam:format_1734
    description: Format of bibliographic reference as used by the PubMed database.
    meaning: edam:format_1734
    title: PubMed citation
  edam:format_1735:
    text: edam:format_1735
    description: Format for abstracts of scientific articles from the Medline database.
    meaning: edam:format_1735
    title: Medline Display Format
  edam:format_1736:
    text: edam:format_1736
    description: CiteXplore 'core' citation format including title, journal, authors
      and abstract.
    meaning: edam:format_1736
    title: CiteXplore-core
  edam:format_1737:
    text: edam:format_1737
    description: CiteXplore 'all' citation format includes all known details such
      as Mesh terms and cross-references.
    meaning: edam:format_1737
    title: CiteXplore-all
  edam:format_1739:
    text: edam:format_1739
    description: Article format of the PubMed Central database.
    meaning: edam:format_1739
    title: pmc
  edam:format_1740:
    text: edam:format_1740
    description: The format of iHOP (Information Hyperlinked over Proteins) text-mining
      result.
    meaning: edam:format_1740
    title: iHOP format
  edam:format_1741:
    text: edam:format_1741
    description: OSCAR format of annotated chemical text.
    meaning: edam:format_1741
    title: OSCAR format
  edam:format_1861:
    text: edam:format_1861
    description: Map of a plasmid (circular DNA) in PlasMapper TextMap format.
    meaning: edam:format_1861
    title: PlasMapper TextMap
  edam:format_1910:
    text: edam:format_1910
    description: Phylogenetic tree Newick (text) format.
    meaning: edam:format_1910
    title: newick
  edam:format_1911:
    text: edam:format_1911
    description: Phylogenetic tree TreeCon (text) format.
    meaning: edam:format_1911
    title: TreeCon format
  edam:format_1912:
    text: edam:format_1912
    description: Phylogenetic tree Nexus (text) format.
    meaning: edam:format_1912
    title: Nexus format
  edam:format_1919:
    text: edam:format_1919
    description: Data format for a molecular sequence record.
    meaning: edam:format_1919
    title: Sequence record format
  edam:format_1920:
    text: edam:format_1920
    description: Data format for molecular sequence feature information.
    meaning: edam:format_1920
    title: Sequence feature annotation format
  edam:format_1921:
    text: edam:format_1921
    description: Data format for molecular sequence alignment information.
    meaning: edam:format_1921
    title: Alignment format
  edam:format_1923:
    text: edam:format_1923
    description: ACEDB sequence format.
    meaning: edam:format_1923
    title: acedb
  edam:format_1925:
    text: edam:format_1925
    description: Codata entry format.
    meaning: edam:format_1925
    title: codata
  edam:format_1926:
    text: edam:format_1926
    description: Fasta format variant with database name before ID.
    meaning: edam:format_1926
    title: dbid
  edam:format_1927:
    text: edam:format_1927
    description: EMBL entry format.
    meaning: edam:format_1927
    title: EMBL format
  edam:format_1928:
    text: edam:format_1928
    description: Staden experiment file format.
    meaning: edam:format_1928
    title: Staden experiment format
  edam:format_1929:
    text: edam:format_1929
    description: FASTA format including NCBI-style IDs.
    meaning: edam:format_1929
    title: FASTA
  edam:format_1930:
    text: edam:format_1930
    description: FASTQ short read format ignoring quality scores.
    meaning: edam:format_1930
    title: FASTQ
  edam:format_1931:
    text: edam:format_1931
    description: FASTQ Illumina 1.3 short read format.
    meaning: edam:format_1931
    title: FASTQ-illumina
  edam:format_1932:
    text: edam:format_1932
    description: FASTQ short read format with phred quality.
    meaning: edam:format_1932
    title: FASTQ-sanger
  edam:format_1933:
    text: edam:format_1933
    description: FASTQ Solexa/Illumina 1.0 short read format.
    meaning: edam:format_1933
    title: FASTQ-solexa
  edam:format_1934:
    text: edam:format_1934
    description: Fitch program format.
    meaning: edam:format_1934
    title: fitch program
  edam:format_1935:
    text: edam:format_1935
    description: GCG sequence file format.
    meaning: edam:format_1935
    title: GCG
  edam:format_1936:
    text: edam:format_1936
    description: Genbank entry format.
    meaning: edam:format_1936
    title: GenBank format
  edam:format_1937:
    text: edam:format_1937
    description: Genpept protein entry format.
    meaning: edam:format_1937
    title: genpept
  edam:format_1938:
    text: edam:format_1938
    description: GFF feature file format with sequence in the header.
    meaning: edam:format_1938
    title: GFF2-seq
  edam:format_1939:
    text: edam:format_1939
    description: GFF3 feature file format with sequence.
    meaning: edam:format_1939
    title: GFF3-seq
  edam:format_1940:
    text: edam:format_1940
    description: FASTA sequence format including NCBI-style GIs.
    meaning: edam:format_1940
    title: giFASTA format
  edam:format_1941:
    text: edam:format_1941
    description: Hennig86 output sequence format.
    meaning: edam:format_1941
    title: hennig86
  edam:format_1942:
    text: edam:format_1942
    description: Intelligenetics sequence format.
    meaning: edam:format_1942
    title: ig
  edam:format_1943:
    text: edam:format_1943
    description: Intelligenetics sequence format (strict version).
    meaning: edam:format_1943
    title: igstrict
  edam:format_1944:
    text: edam:format_1944
    description: Jackknifer interleaved and non-interleaved sequence format.
    meaning: edam:format_1944
    title: jackknifer
  edam:format_1945:
    text: edam:format_1945
    description: Mase program sequence format.
    meaning: edam:format_1945
    title: mase format
  edam:format_1946:
    text: edam:format_1946
    description: Mega interleaved and non-interleaved sequence format.
    meaning: edam:format_1946
    title: mega-seq
  edam:format_1947:
    text: edam:format_1947
    description: GCG MSF (multiple sequence file) file format.
    meaning: edam:format_1947
    title: GCG MSF
  edam:format_1948:
    text: edam:format_1948
    description: NBRF/PIR entry sequence format.
    meaning: edam:format_1948
    title: nbrf/pir
  edam:format_1949:
    text: edam:format_1949
    description: Nexus/paup interleaved sequence format.
    meaning: edam:format_1949
    title: nexus-seq
  edam:format_1950:
    text: edam:format_1950
    description: PDB sequence format (ATOM lines).
    meaning: edam:format_1950
    title: pdbatom
  edam:format_1951:
    text: edam:format_1951
    description: PDB nucleotide sequence format (ATOM lines).
    meaning: edam:format_1951
    title: pdbatomnuc
  edam:format_1952:
    text: edam:format_1952
    description: PDB nucleotide sequence format (SEQRES lines).
    meaning: edam:format_1952
    title: pdbseqresnuc
  edam:format_1953:
    text: edam:format_1953
    description: PDB sequence format (SEQRES lines).
    meaning: edam:format_1953
    title: pdbseqres
  edam:format_1954:
    text: edam:format_1954
    description: Plain old FASTA sequence format (unspecified format for IDs).
    meaning: edam:format_1954
    title: Pearson format
  edam:format_1957:
    text: edam:format_1957
    description: Raw sequence format with no non-sequence characters.
    meaning: edam:format_1957
    title: raw
  edam:format_1958:
    text: edam:format_1958
    description: Refseq protein entry sequence format.
    meaning: edam:format_1958
    title: refseqp
  edam:format_1960:
    text: edam:format_1960
    description: Staden suite sequence format.
    meaning: edam:format_1960
    title: Staden format
  edam:format_1961:
    text: edam:format_1961
    description: Stockholm multiple sequence alignment format (used by Pfam and Rfam).
    meaning: edam:format_1961
    title: Stockholm format
  edam:format_1962:
    text: edam:format_1962
    description: DNA strider output sequence format.
    meaning: edam:format_1962
    title: strider format
  edam:format_1963:
    text: edam:format_1963
    description: UniProtKB entry sequence format.
    meaning: edam:format_1963
    title: UniProtKB format
  edam:format_1964:
    text: edam:format_1964
    description: Plain text sequence format (essentially unformatted).
    meaning: edam:format_1964
    title: plain text format (unformatted)
  edam:format_1966:
    text: edam:format_1966
    description: NCBI ASN.1-based sequence format.
    meaning: edam:format_1966
    title: ASN.1 sequence format
  edam:format_1967:
    text: edam:format_1967
    description: DAS sequence (XML) format (any type).
    meaning: edam:format_1967
    title: DAS format
  edam:format_1968:
    text: edam:format_1968
    description: DAS sequence (XML) format (nucleotide-only).
    meaning: edam:format_1968
    title: dasdna
  edam:format_1969:
    text: edam:format_1969
    description: EMBOSS debugging trace sequence format of full internal data content.
    meaning: edam:format_1969
    title: debug-seq
  edam:format_1970:
    text: edam:format_1970
    description: Jackknifer output sequence non-interleaved format.
    meaning: edam:format_1970
    title: jackknifernon
  edam:format_1972:
    text: edam:format_1972
    description: NCBI FASTA sequence format with NCBI-style IDs.
    meaning: edam:format_1972
    title: NCBI format
  edam:format_1973:
    text: edam:format_1973
    description: Nexus/paup non-interleaved sequence format.
    meaning: edam:format_1973
    title: nexusnon
  edam:format_1974:
    text: edam:format_1974
    description: General Feature Format (GFF) of sequence features.
    meaning: edam:format_1974
    title: GFF2
  edam:format_1975:
    text: edam:format_1975
    description: Generic Feature Format version 3 (GFF3) of sequence features.
    meaning: edam:format_1975
    title: GFF3
  edam:format_1978:
    text: edam:format_1978
    description: DAS GFF (XML) feature format.
    meaning: edam:format_1978
    title: DASGFF
  edam:format_1979:
    text: edam:format_1979
    description: EMBOSS debugging trace feature format of full internal data content.
    meaning: edam:format_1979
    title: debug-feat
  edam:format_1982:
    text: edam:format_1982
    description: ClustalW format for (aligned) sequences.
    meaning: edam:format_1982
    title: ClustalW format
  edam:format_1983:
    text: edam:format_1983
    description: EMBOSS alignment format for debugging trace of full internal data
      content.
    meaning: edam:format_1983
    title: debug
  edam:format_1984:
    text: edam:format_1984
    description: Fasta format for (aligned) sequences.
    meaning: edam:format_1984
    title: FASTA-aln
  edam:format_1985:
    text: edam:format_1985
    description: Pearson MARKX0 alignment format.
    meaning: edam:format_1985
    title: markx0
  edam:format_1986:
    text: edam:format_1986
    description: Pearson MARKX1 alignment format.
    meaning: edam:format_1986
    title: markx1
  edam:format_1987:
    text: edam:format_1987
    description: Pearson MARKX10 alignment format.
    meaning: edam:format_1987
    title: markx10
  edam:format_1988:
    text: edam:format_1988
    description: Pearson MARKX2 alignment format.
    meaning: edam:format_1988
    title: markx2
  edam:format_1989:
    text: edam:format_1989
    description: Pearson MARKX3 alignment format.
    meaning: edam:format_1989
    title: markx3
  edam:format_1990:
    text: edam:format_1990
    description: Alignment format for start and end of matches between sequence pairs.
    meaning: edam:format_1990
    title: match
  edam:format_1991:
    text: edam:format_1991
    description: Mega format for (typically aligned) sequences.
    meaning: edam:format_1991
    title: mega
  edam:format_1992:
    text: edam:format_1992
    description: Mega non-interleaved format for (typically aligned) sequences.
    meaning: edam:format_1992
    title: meganon
  edam:format_1996:
    text: edam:format_1996
    description: EMBOSS simple sequence pairwise alignment format.
    meaning: edam:format_1996
    title: pair
  edam:format_1997:
    text: edam:format_1997
    description: Phylip format for (aligned) sequences.
    meaning: edam:format_1997
    title: PHYLIP format
  edam:format_1998:
    text: edam:format_1998
    description: Phylip non-interleaved format for (aligned) sequences.
    meaning: edam:format_1998
    title: PHYLIP sequential
  edam:format_1999:
    text: edam:format_1999
    description: Alignment format for score values for pairs of sequences.
    meaning: edam:format_1999
    title: scores format
  edam:format_2000:
    text: edam:format_2000
    description: SELEX format for (aligned) sequences.
    meaning: edam:format_2000
    title: selex
  edam:format_2001:
    text: edam:format_2001
    description: EMBOSS simple multiple alignment format.
    meaning: edam:format_2001
    title: EMBOSS simple format
  edam:format_2002:
    text: edam:format_2002
    description: Simple multiple sequence (alignment) format for SRS.
    meaning: edam:format_2002
    title: srs format
  edam:format_2003:
    text: edam:format_2003
    description: Simple sequence pair (alignment) format for SRS.
    meaning: edam:format_2003
    title: srspair
  edam:format_2004:
    text: edam:format_2004
    description: T-Coffee program alignment format.
    meaning: edam:format_2004
    title: T-Coffee format
  edam:format_2005:
    text: edam:format_2005
    description: Treecon format for (aligned) sequences.
    meaning: edam:format_2005
    title: TreeCon-seq
  edam:format_2006:
    text: edam:format_2006
    description: Data format for a phylogenetic tree.
    meaning: edam:format_2006
    title: Phylogenetic tree format
  edam:format_2013:
    text: edam:format_2013
    description: Data format for a biological pathway or network.
    meaning: edam:format_2013
    title: Biological pathway or network format
  edam:format_2014:
    text: edam:format_2014
    description: Data format for a sequence-profile alignment.
    meaning: edam:format_2014
    title: Sequence-profile alignment format
  edam:format_2017:
    text: edam:format_2017
    description: Data format for an amino acid index.
    meaning: edam:format_2017
    title: Amino acid index format
  edam:format_2020:
    text: edam:format_2020
    description: Data format for a full-text scientific article.
    meaning: edam:format_2020
    title: Article format
  edam:format_2021:
    text: edam:format_2021
    description: Data format of a report from text mining.
    meaning: edam:format_2021
    title: Text mining report format
  edam:format_2027:
    text: edam:format_2027
    description: Data format for reports on enzyme kinetics.
    meaning: edam:format_2027
    title: Enzyme kinetics report format
  edam:format_2030:
    text: edam:format_2030
    description: Format of a report on a chemical compound.
    meaning: edam:format_2030
    title: Chemical data format
  edam:format_2031:
    text: edam:format_2031
    description: Format of a report on a particular locus, gene, gene system or groups
      of genes.
    meaning: edam:format_2031
    title: Gene annotation format
  edam:format_2032:
    text: edam:format_2032
    description: Format of a workflow.
    meaning: edam:format_2032
    title: Workflow format
  edam:format_2033:
    text: edam:format_2033
    description: Data format for a molecular tertiary structure.
    meaning: edam:format_2033
    title: Tertiary structure format
  edam:format_2035:
    text: edam:format_2035
    description: Text format of a chemical formula.
    meaning: edam:format_2035
    title: Chemical formula format
  edam:format_2036:
    text: edam:format_2036
    description: Format of raw (unplotted) phylogenetic data.
    meaning: edam:format_2036
    title: Phylogenetic character data format
  edam:format_2037:
    text: edam:format_2037
    description: Format of phylogenetic continuous quantitative character data.
    meaning: edam:format_2037
    title: Phylogenetic continuous quantitative character format
  edam:format_2038:
    text: edam:format_2038
    description: Format of phylogenetic discrete states data.
    meaning: edam:format_2038
    title: Phylogenetic discrete states format
  edam:format_2039:
    text: edam:format_2039
    description: Format of phylogenetic cliques data.
    meaning: edam:format_2039
    title: Phylogenetic tree report (cliques) format
  edam:format_2040:
    text: edam:format_2040
    description: Format of phylogenetic invariants data.
    meaning: edam:format_2040
    title: Phylogenetic tree report (invariants) format
  edam:format_2049:
    text: edam:format_2049
    description: Format for phylogenetic tree distance data.
    meaning: edam:format_2049
    title: Phylogenetic tree report (tree distances) format
  edam:format_2052:
    text: edam:format_2052
    description: Format for reports on a protein family.
    meaning: edam:format_2052
    title: Protein family report format
  edam:format_2054:
    text: edam:format_2054
    description: Format for molecular interaction data.
    meaning: edam:format_2054
    title: Protein interaction format
  edam:format_2055:
    text: edam:format_2055
    description: Format for sequence assembly data.
    meaning: edam:format_2055
    title: Sequence assembly format
  edam:format_2056:
    text: edam:format_2056
    description: Format for information about a microarray experimental per se (not
      the data generated from that experiment).
    meaning: edam:format_2056
    title: Microarray experiment data format
  edam:format_2057:
    text: edam:format_2057
    description: Format for sequence trace data (i.e. including base call information).
    meaning: edam:format_2057
    title: Sequence trace format
  edam:format_2058:
    text: edam:format_2058
    description: Format of a file of gene expression data, e.g. a gene expression
      matrix or profile.
    meaning: edam:format_2058
    title: Gene expression report format
  edam:format_2060:
    text: edam:format_2060
    description: Format of a map of (typically one) molecular sequence annotated with
      features.
    meaning: edam:format_2060
    title: Map format
  edam:format_2061:
    text: edam:format_2061
    description: Format of a report on PCR primers or hybridisation oligos in a nucleic
      acid sequence.
    meaning: edam:format_2061
    title: Nucleic acid features (primers) format
  edam:format_2062:
    text: edam:format_2062
    description: Format of a report of general information about a specific protein.
    meaning: edam:format_2062
    title: Protein report format
  edam:format_2064:
    text: edam:format_2064
    description: Format of a matrix of 3D-1D scores (amino acid environment probabilities).
    meaning: edam:format_2064
    title: 3D-1D scoring matrix format
  edam:format_2065:
    text: edam:format_2065
    description: Format of a report on the quality of a protein three-dimensional
      model.
    meaning: edam:format_2065
    title: Protein structure report (quality evaluation) format
  edam:format_2066:
    text: edam:format_2066
    description: Format of a report on sequence hits and associated data from searching
      a sequence database.
    meaning: edam:format_2066
    title: Database hits (sequence) format
  edam:format_2067:
    text: edam:format_2067
    description: Format of a matrix of genetic distances between molecular sequences.
    meaning: edam:format_2067
    title: Sequence distance matrix format
  edam:format_2068:
    text: edam:format_2068
    description: Format of a sequence motif.
    meaning: edam:format_2068
    title: Sequence motif format
  edam:format_2069:
    text: edam:format_2069
    description: Format of a sequence profile.
    meaning: edam:format_2069
    title: Sequence profile format
  edam:format_2072:
    text: edam:format_2072
    description: Format of a hidden Markov model.
    meaning: edam:format_2072
    title: Hidden Markov model format
  edam:format_2074:
    text: edam:format_2074
    description: Data format of a dirichlet distribution.
    meaning: edam:format_2074
    title: Dirichlet distribution format
  edam:format_2075:
    text: edam:format_2075
    description: Data format for the emission and transition counts of a hidden Markov
      model.
    meaning: edam:format_2075
    title: HMM emission and transition counts format
  edam:format_2076:
    text: edam:format_2076
    description: Format for secondary structure (predicted or real) of an RNA molecule.
    meaning: edam:format_2076
    title: RNA secondary structure format
  edam:format_2077:
    text: edam:format_2077
    description: Format for secondary structure (predicted or real) of a protein molecule.
    meaning: edam:format_2077
    title: Protein secondary structure format
  edam:format_2078:
    text: edam:format_2078
    description: Format used to specify range(s) of sequence positions.
    meaning: edam:format_2078
    title: Sequence range format
  edam:format_2094:
    text: edam:format_2094
    description: Alphabet for molecular sequence with possible unknown positions but
      without non-sequence characters.
    meaning: edam:format_2094
    title: pure
  edam:format_2095:
    text: edam:format_2095
    description: Alphabet for a molecular sequence with possible unknown positions
      but possibly with non-sequence characters.
    meaning: edam:format_2095
    title: unpure
  edam:format_2096:
    text: edam:format_2096
    description: Alphabet for a molecular sequence with possible unknown positions
      but without ambiguity characters.
    meaning: edam:format_2096
    title: unambiguous sequence
  edam:format_2097:
    text: edam:format_2097
    description: Alphabet for a molecular sequence with possible unknown positions
      and possible ambiguity characters.
    meaning: edam:format_2097
    title: ambiguous
  edam:format_2155:
    text: edam:format_2155
    description: Format used for map of repeats in molecular (typically nucleotide)
      sequences.
    meaning: edam:format_2155
    title: Sequence features (repeats) format
  edam:format_2158:
    text: edam:format_2158
    description: Format used for report on restriction enzyme recognition sites in
      nucleotide sequences.
    meaning: edam:format_2158
    title: Nucleic acid features (restriction sites) format
  edam:format_2170:
    text: edam:format_2170
    description: Format used for clusters of molecular sequences.
    meaning: edam:format_2170
    title: Sequence cluster format
  edam:format_2171:
    text: edam:format_2171
    description: Format used for clusters of protein sequences.
    meaning: edam:format_2171
    title: Sequence cluster format (protein)
  edam:format_2172:
    text: edam:format_2172
    description: Format used for clusters of nucleotide sequences.
    meaning: edam:format_2172
    title: Sequence cluster format (nucleic acid)
  edam:format_2181:
    text: edam:format_2181
    description: A text format resembling EMBL entry format.
    meaning: edam:format_2181
    title: EMBL-like (text)
  edam:format_2182:
    text: edam:format_2182
    description: A text format resembling FASTQ short read format.
    meaning: edam:format_2182
    title: FASTQ-like format (text)
  edam:format_2183:
    text: edam:format_2183
    description: XML format for EMBL entries.
    meaning: edam:format_2183
    title: EMBLXML
  edam:format_2184:
    text: edam:format_2184
    description: Specific XML format for EMBL entries (only uses certain sections).
    meaning: edam:format_2184
    title: cdsxml
  edam:format_2185:
    text: edam:format_2185
    description: INSDSeq provides the elements of a sequence as presented in the GenBank/EMBL/DDBJ-style
      flatfile formats, with a small amount of additional structure.
    meaning: edam:format_2185
    title: INSDSeq
  edam:format_2186:
    text: edam:format_2186
    description: Geneseq sequence format.
    meaning: edam:format_2186
    title: geneseq
  edam:format_2187:
    text: edam:format_2187
    description: A text sequence format resembling uniprotkb entry format.
    meaning: edam:format_2187
    title: UniProt-like (text)
  edam:format_2194:
    text: edam:format_2194
    description: Abstract format used by MedLine database.
    meaning: edam:format_2194
    title: medline
  edam:format_2195:
    text: edam:format_2195
    description: Format used for ontologies.
    meaning: edam:format_2195
    title: Ontology format
  edam:format_2196:
    text: edam:format_2196
    description: A serialisation format conforming to the Open Biomedical Ontologies
      (OBO) model.
    meaning: edam:format_2196
    title: OBO format
  edam:format_2197:
    text: edam:format_2197
    description: A serialisation format conforming to the Web Ontology Language (OWL)
      model.
    meaning: edam:format_2197
    title: OWL format
  edam:format_2200:
    text: edam:format_2200
    description: A text format resembling FASTA format.
    meaning: edam:format_2200
    title: FASTA-like (text)
  edam:format_2204:
    text: edam:format_2204
    description: An XML format for EMBL entries.
    meaning: edam:format_2204
    title: EMBL format (XML)
  edam:format_2205:
    text: edam:format_2205
    description: A text format resembling GenBank entry (plain text) format.
    meaning: edam:format_2205
    title: GenBank-like format (text)
  edam:format_2206:
    text: edam:format_2206
    description: Text format for a sequence feature table.
    meaning: edam:format_2206
    title: Sequence feature table format (text)
  edam:format_2304:
    text: edam:format_2304
    description: Entry format (XML) for the STRING database of protein interaction.
    meaning: edam:format_2304
    title: STRING entry format (XML)
  edam:format_2305:
    text: edam:format_2305
    description: GFF feature format (of indeterminate version).
    meaning: edam:format_2305
    title: GFF
  edam:format_2306:
    text: edam:format_2306
    description: Gene Transfer Format (GTF), a restricted version of GFF.
    meaning: edam:format_2306
    title: GTF
  edam:format_2310:
    text: edam:format_2310
    description: FASTA format wrapped in HTML elements.
    meaning: edam:format_2310
    title: FASTA-HTML
  edam:format_2311:
    text: edam:format_2311
    description: EMBL entry format wrapped in HTML elements.
    meaning: edam:format_2311
    title: EMBL-HTML
  edam:format_2330:
    text: edam:format_2330
    description: Textual format.
    meaning: edam:format_2330
    title: Textual format
  edam:format_2331:
    text: edam:format_2331
    description: HTML format.
    meaning: edam:format_2331
    title: HTML
  edam:format_2332:
    text: edam:format_2332
    description: eXtensible Markup Language (XML) format.
    meaning: edam:format_2332
    title: XML
  edam:format_2333:
    text: edam:format_2333
    description: Binary format.
    meaning: edam:format_2333
    title: Binary format
  edam:format_2350:
    text: edam:format_2350
    description: A placeholder concept for visual navigation by dividing data formats
      by the content of the data that is represented.
    meaning: edam:format_2350
    title: Format (by type of data)
  edam:format_2352:
    text: edam:format_2352
    description: BioXSD-schema-based XML format of sequence-based data and some other
      common data - sequence records, alignments, feature records, references to resources,
      and more - optimised for integrative bioinformatics, Web services, and object-oriented
      programming.
    meaning: edam:format_2352
    title: BioXSD (XML)
  edam:format_2376:
    text: edam:format_2376
    description: A serialisation format conforming to the Resource Description Framework
      (RDF) model.
    meaning: edam:format_2376
    title: RDF format
  edam:format_2532:
    text: edam:format_2532
    description: Genbank entry format wrapped in HTML elements.
    meaning: edam:format_2532
    title: GenBank-HTML
  edam:format_2543:
    text: edam:format_2543
    description: A format resembling EMBL entry (plain text) format.
    meaning: edam:format_2543
    title: EMBL-like format
  edam:format_2545:
    text: edam:format_2545
    description: A format resembling FASTQ short read format.
    meaning: edam:format_2545
    title: FASTQ-like format
  edam:format_2546:
    text: edam:format_2546
    description: A format resembling FASTA format.
    meaning: edam:format_2546
    title: FASTA-like
  edam:format_2547:
    text: edam:format_2547
    description: A sequence format resembling uniprotkb entry format.
    meaning: edam:format_2547
    title: uniprotkb-like format
  edam:format_2548:
    text: edam:format_2548
    description: Format for a sequence feature table.
    meaning: edam:format_2548
    title: Sequence feature table format
  edam:format_2549:
    text: edam:format_2549
    description: OBO ontology text format.
    meaning: edam:format_2549
    title: OBO
  edam:format_2550:
    text: edam:format_2550
    description: OBO ontology XML format.
    meaning: edam:format_2550
    title: OBO-XML
  edam:format_2551:
    text: edam:format_2551
    description: Data format for a molecular sequence record (text).
    meaning: edam:format_2551
    title: Sequence record format (text)
  edam:format_2552:
    text: edam:format_2552
    description: Data format for a molecular sequence record (XML).
    meaning: edam:format_2552
    title: Sequence record format (XML)
  edam:format_2553:
    text: edam:format_2553
    description: XML format for a sequence feature table.
    meaning: edam:format_2553
    title: Sequence feature table format (XML)
  edam:format_2554:
    text: edam:format_2554
    description: Text format for molecular sequence alignment information.
    meaning: edam:format_2554
    title: Alignment format (text)
  edam:format_2555:
    text: edam:format_2555
    description: XML format for molecular sequence alignment information.
    meaning: edam:format_2555
    title: Alignment format (XML)
  edam:format_2556:
    text: edam:format_2556
    description: Text format for a phylogenetic tree.
    meaning: edam:format_2556
    title: Phylogenetic tree format (text)
  edam:format_2557:
    text: edam:format_2557
    description: XML format for a phylogenetic tree.
    meaning: edam:format_2557
    title: Phylogenetic tree format (XML)
  edam:format_2558:
    text: edam:format_2558
    description: An XML format resembling EMBL entry format.
    meaning: edam:format_2558
    title: EMBL-like (XML)
  edam:format_2559:
    text: edam:format_2559
    description: A format resembling GenBank entry (plain text) format.
    meaning: edam:format_2559
    title: GenBank-like format
  edam:format_2561:
    text: edam:format_2561
    description: Text format for sequence assembly data.
    meaning: edam:format_2561
    title: Sequence assembly format (text)
  edam:format_2566:
    text: edam:format_2566
    description: Alphabet for a molecular sequence without any unknown positions or
      ambiguity characters.
    meaning: edam:format_2566
    title: completely unambiguous
  edam:format_2567:
    text: edam:format_2567
    description: Alphabet for a molecular sequence without unknown positions, ambiguity
      or non-sequence characters.
    meaning: edam:format_2567
    title: completely unambiguous pure
  edam:format_2568:
    text: edam:format_2568
    description: Alphabet for a nucleotide sequence (characters ACGTU only) without
      unknown positions, ambiguity or non-sequence characters .
    meaning: edam:format_2568
    title: completely unambiguous pure nucleotide
  edam:format_2569:
    text: edam:format_2569
    description: Alphabet for a DNA sequence (characters ACGT only) without unknown
      positions, ambiguity or non-sequence characters.
    meaning: edam:format_2569
    title: completely unambiguous pure dna
  edam:format_2570:
    text: edam:format_2570
    description: Alphabet for an RNA sequence (characters ACGU only) without unknown
      positions, ambiguity or non-sequence characters.
    meaning: edam:format_2570
    title: completely unambiguous pure rna sequence
  edam:format_2571:
    text: edam:format_2571
    description: Format of a raw molecular sequence (i.e. the alphabet used).
    meaning: edam:format_2571
    title: Raw sequence format
  edam:format_2572:
    text: edam:format_2572
    description: BAM format, the binary, BGZF-formatted compressed version of SAM
      format for alignment of nucleotide sequences (e.g. sequencing reads) to (a)
      reference sequence(s). May contain base-call and alignment qualities and other
      data.
    meaning: edam:format_2572
    title: BAM
  edam:format_2573:
    text: edam:format_2573
    description: Sequence Alignment/Map (SAM) format for alignment of nucleotide sequences
      (e.g. sequencing reads) to (a) reference sequence(s). May contain base-call
      and alignment qualities and other data.
    meaning: edam:format_2573
    title: SAM
  edam:format_2585:
    text: edam:format_2585
    description: Systems Biology Markup Language (SBML), the standard XML format for
      models of biological processes such as for example metabolism, cell signaling,
      and gene regulation.
    meaning: edam:format_2585
    title: SBML
  edam:format_2607:
    text: edam:format_2607
    description: Alphabet for any protein sequence without unknown positions, ambiguity
      or non-sequence characters.
    meaning: edam:format_2607
    title: completely unambiguous pure protein
  edam:format_2848:
    text: edam:format_2848
    description: Format of a bibliographic reference.
    meaning: edam:format_2848
    title: Bibliographic reference format
  edam:format_2919:
    text: edam:format_2919
    description: Format of a sequence annotation track.
    meaning: edam:format_2919
    title: Sequence annotation track format
  edam:format_2920:
    text: edam:format_2920
    description: Data format for molecular sequence alignment information that can
      hold sequence alignment(s) of only 2 sequences.
    meaning: edam:format_2920
    title: Alignment format (pair only)
  edam:format_2921:
    text: edam:format_2921
    description: Format of sequence variation annotation.
    meaning: edam:format_2921
    title: Sequence variation annotation format
  edam:format_2922:
    text: edam:format_2922
    description: Some variant of Pearson MARKX alignment format.
    meaning: edam:format_2922
    title: markx0 variant
  edam:format_2923:
    text: edam:format_2923
    description: Some variant of Mega format for (typically aligned) sequences.
    meaning: edam:format_2923
    title: mega variant
  edam:format_2924:
    text: edam:format_2924
    description: Some variant of Phylip format for (aligned) sequences.
    meaning: edam:format_2924
    title: Phylip format variant
  edam:format_3000:
    text: edam:format_3000
    description: AB1 binary format of raw DNA sequence reads (output of Applied Biosystems'
      sequencing analysis software). Contains an electropherogram and the DNA base
      sequence.
    meaning: edam:format_3000
    title: AB1
  edam:format_3001:
    text: edam:format_3001
    description: ACE sequence assembly format including contigs, base-call qualities,
      and other metadata (version Aug 1998 and onwards).
    meaning: edam:format_3001
    title: ACE
  edam:format_3003:
    text: edam:format_3003
    description: Browser Extensible Data (BED) format of sequence annotation track,
      typically to be displayed in a genome browser.
    meaning: edam:format_3003
    title: BED
  edam:format_3004:
    text: edam:format_3004
    description: bigBed format for large sequence annotation tracks, similar to textual
      BED format.
    meaning: edam:format_3004
    title: bigBed
  edam:format_3005:
    text: edam:format_3005
    description: Wiggle format (WIG) of a sequence annotation track that consists
      of a value for each sequence position. Typically to be displayed in a genome
      browser.
    meaning: edam:format_3005
    title: WIG
  edam:format_3006:
    text: edam:format_3006
    description: bigWig format for large sequence annotation tracks that consist of
      a value for each sequence position. Similar to textual WIG format.
    meaning: edam:format_3006
    title: bigWig
  edam:format_3007:
    text: edam:format_3007
    description: PSL format of alignments, typically generated by BLAT or psLayout.
      Can be displayed in a genome browser like a sequence annotation track.
    meaning: edam:format_3007
    title: PSL
  edam:format_3008:
    text: edam:format_3008
    description: Multiple Alignment Format (MAF) supporting alignments of whole genomes
      with rearrangements, directions, multiple pieces to the alignment, and so forth.
    meaning: edam:format_3008
    title: MAF
  edam:format_3009:
    text: edam:format_3009
    description: 2bit binary format of nucleotide sequences using 2 bits per nucleotide.
      In addition encodes unknown nucleotides and lower-case 'masking'.
    meaning: edam:format_3009
    title: 2bit
  edam:format_3010:
    text: edam:format_3010
    description: .nib (nibble) binary format of a nucleotide sequence using 4 bits
      per nucleotide (including unknown) and its lower-case 'masking'.
    meaning: edam:format_3010
    title: .nib
  edam:format_3011:
    text: edam:format_3011
    description: genePred table format for gene prediction tracks.
    meaning: edam:format_3011
    title: genePred
  edam:format_3012:
    text: edam:format_3012
    description: Personal Genome SNP (pgSnp) format for sequence variation tracks
      (indels and polymorphisms), supported by the UCSC Genome Browser.
    meaning: edam:format_3012
    title: pgSnp
  edam:format_3013:
    text: edam:format_3013
    description: axt format of alignments, typically produced from BLASTZ.
    meaning: edam:format_3013
    title: axt
  edam:format_3014:
    text: edam:format_3014
    description: LAV format of alignments generated by BLASTZ and LASTZ.
    meaning: edam:format_3014
    title: LAV
  edam:format_3015:
    text: edam:format_3015
    description: Pileup format of alignment of sequences (e.g. sequencing reads) to
      (a) reference sequence(s). Contains aligned bases per base of the reference
      sequence(s).
    meaning: edam:format_3015
    title: Pileup
  edam:format_3016:
    text: edam:format_3016
    description: Variant Call Format (VCF) is tabular format for storing genomic sequence
      variations.
    meaning: edam:format_3016
    title: VCF
  edam:format_3017:
    text: edam:format_3017
    description: Sequence Read Format (SRF) of sequence trace data. Supports submission
      to the NCBI Short Read Archive.
    meaning: edam:format_3017
    title: SRF
  edam:format_3018:
    text: edam:format_3018
    description: ZTR format for storing chromatogram data from DNA sequencing instruments.
    meaning: edam:format_3018
    title: ZTR
  edam:format_3019:
    text: edam:format_3019
    description: Genome Variation Format (GVF). A GFF3-compatible format with defined
      header and attribute tags for sequence variation.
    meaning: edam:format_3019
    title: GVF
  edam:format_3020:
    text: edam:format_3020
    description: BCF is the binary version of Variant Call Format (VCF) for sequence
      variation (indels, polymorphisms, structural variation).
    meaning: edam:format_3020
    title: BCF
  edam:format_3033:
    text: edam:format_3033
    description: Format of a matrix (array) of numerical values.
    meaning: edam:format_3033
    title: Matrix format
  edam:format_3097:
    text: edam:format_3097
    description: Format of data concerning the classification of the sequences and/or
      structures of protein structural domain(s).
    meaning: edam:format_3097
    title: Protein domain classification format
  edam:format_3098:
    text: edam:format_3098
    description: Format of raw SCOP domain classification data files.
    meaning: edam:format_3098
    title: Raw SCOP domain classification format
  edam:format_3099:
    text: edam:format_3099
    description: Format of raw CATH domain classification data files.
    meaning: edam:format_3099
    title: Raw CATH domain classification format
  edam:format_3100:
    text: edam:format_3100
    description: Format of summary of domain classification information for a CATH
      domain.
    meaning: edam:format_3100
    title: CATH domain report format
  edam:format_3155:
    text: edam:format_3155
    description: Systems Biology Result Markup Language (SBRML), the standard XML
      format for simulated or calculated results (e.g. trajectories) of systems biology
      models.
    meaning: edam:format_3155
    title: SBRML
  edam:format_3156:
    text: edam:format_3156
    description: BioPAX is an exchange format for pathway data, with its data model
      defined in OWL.
    meaning: edam:format_3156
    title: BioPAX
  edam:format_3157:
    text: edam:format_3157
    description: EBI Application Result XML is a format returned by sequence similarity
      search Web services at EBI.
    meaning: edam:format_3157
    title: EBI Application Result XML
  edam:format_3158:
    text: edam:format_3158
    description: XML Molecular Interaction Format (MIF), standardised by HUPO PSI
      MI.
    meaning: edam:format_3158
    title: PSI MI XML (MIF)
  edam:format_3159:
    text: edam:format_3159
    description: phyloXML is a standardised XML format for phylogenetic trees, networks,
      and associated data.
    meaning: edam:format_3159
    title: phyloXML
  edam:format_3160:
    text: edam:format_3160
    description: NeXML is a standardised XML format for rich phyloinformatic data.
    meaning: edam:format_3160
    title: NeXML
  edam:format_3161:
    text: edam:format_3161
    description: MAGE-ML XML format for microarray expression data, standardised by
      MGED (now FGED).
    meaning: edam:format_3161
    title: MAGE-ML
  edam:format_3162:
    text: edam:format_3162
    description: MAGE-TAB textual format for microarray expression data, standardised
      by MGED (now FGED).
    meaning: edam:format_3162
    title: MAGE-TAB
  edam:format_3163:
    text: edam:format_3163
    description: GCDML XML format for genome and metagenome metadata according to
      MIGS/MIMS/MIMARKS information standards, standardised by the Genomic Standards
      Consortium (GSC).
    meaning: edam:format_3163
    title: GCDML
  edam:format_3164:
    text: edam:format_3164
    description: GTrack is a generic and optimised tabular format for genome or sequence
      feature tracks. GTrack unifies the power of other track formats (e.g. GFF3,
      BED, WIG), and while optimised in size, adds more flexibility, customisation,
      and automation ("machine understandability").
    meaning: edam:format_3164
    title: GTrack
  edam:format_3166:
    text: edam:format_3166
    description: Data format for a report of information derived from a biological
      pathway or network.
    meaning: edam:format_3166
    title: Biological pathway or network report format
  edam:format_3167:
    text: edam:format_3167
    description: Data format for annotation on a laboratory experiment.
    meaning: edam:format_3167
    title: Experiment annotation format
  edam:format_3235:
    text: edam:format_3235
    description: Cytoband format for chromosome cytobands.
    meaning: edam:format_3235
    title: Cytoband format
  edam:format_3239:
    text: edam:format_3239
    description: CopasiML, the native format of COPASI.
    meaning: edam:format_3239
    title: CopasiML
  edam:format_3240:
    text: edam:format_3240
    description: CellML, the format for mathematical models of biological and other
      networks.
    meaning: edam:format_3240
    title: CellML
  edam:format_3242:
    text: edam:format_3242
    description: Tabular Molecular Interaction format (MITAB), standardised by HUPO
      PSI MI.
    meaning: edam:format_3242
    title: PSI MI TAB (MITAB)
  edam:format_3243:
    text: edam:format_3243
    description: Protein affinity format (PSI-PAR), standardised by HUPO PSI MI. It
      is compatible with PSI MI XML (MIF) and uses the same XML Schema.
    meaning: edam:format_3243
    title: PSI-PAR
  edam:format_3244:
    text: edam:format_3244
    description: mzML format for raw spectrometer output data, standardised by HUPO
      PSI MSS.
    meaning: edam:format_3244
    title: mzML
  edam:format_3245:
    text: edam:format_3245
    description: Format for mass pectra and derived data, include peptide sequences
      etc.
    meaning: edam:format_3245
    title: Mass spectrometry data format
  edam:format_3246:
    text: edam:format_3246
    description: TraML (Transition Markup Language) is the format for mass spectrometry
      transitions, standardised by HUPO PSI MSS.
    meaning: edam:format_3246
    title: TraML
  edam:format_3247:
    text: edam:format_3247
    description: mzIdentML is the exchange format for peptides and proteins identified
      from mass spectra, standardised by HUPO PSI PI. It can be used for outputs of
      proteomics search engines.
    meaning: edam:format_3247
    title: mzIdentML
  edam:format_3248:
    text: edam:format_3248
    description: mzQuantML is the format for quantitation values associated with peptides,
      proteins and small molecules from mass spectra, standardised by HUPO PSI PI.
      It can be used for outputs of quantitation software for proteomics.
    meaning: edam:format_3248
    title: mzQuantML
  edam:format_3249:
    text: edam:format_3249
    description: GelML is the format for describing the process of gel electrophoresis,
      standardised by HUPO PSI PS.
    meaning: edam:format_3249
    title: GelML
  edam:format_3250:
    text: edam:format_3250
    description: spML is the format for describing proteomics sample processing, other
      than using gels, prior to mass spectrometric protein identification, standardised
      by HUPO PSI PS. It may also be applicable for metabolomics.
    meaning: edam:format_3250
    title: spML
  edam:format_3252:
    text: edam:format_3252
    description: A human-readable encoding for the Web Ontology Language (OWL).
    meaning: edam:format_3252
    title: OWL Functional Syntax
  edam:format_3253:
    text: edam:format_3253
    description: A syntax for writing OWL class expressions.
    meaning: edam:format_3253
    title: Manchester OWL Syntax
  edam:format_3254:
    text: edam:format_3254
    description: A superset of the "Description-Logic Knowledge Representation System
      Specification from the KRSS Group of the ARPA Knowledge Sharing Effort".
    meaning: edam:format_3254
    title: KRSS2 Syntax
  edam:format_3255:
    text: edam:format_3255
    description: The Terse RDF Triple Language (Turtle) is a human-friendly serialisation
      format for RDF (Resource Description Framework) graphs.
    meaning: edam:format_3255
    title: Turtle
  edam:format_3256:
    text: edam:format_3256
    description: A plain text serialisation format for RDF (Resource Description Framework)
      graphs, and a subset of the Turtle (Terse RDF Triple Language) format.
    meaning: edam:format_3256
    title: N-Triples
  edam:format_3257:
    text: edam:format_3257
    description: A shorthand non-XML serialisation of Resource Description Framework
      model, designed with human-readability in mind.
    meaning: edam:format_3257
    title: Notation3
  edam:format_3261:
    text: edam:format_3261
    description: Resource Description Framework (RDF) XML format.
    meaning: edam:format_3261
    title: RDF/XML
  edam:format_3262:
    text: edam:format_3262
    description: OWL ontology XML serialisation format.
    meaning: edam:format_3262
    title: OWL/XML
  edam:format_3281:
    text: edam:format_3281
    description: The A2M format is used as the primary format for multiple alignments
      of protein or nucleic-acid sequences in the SAM suite of tools. It is a small
      modification of FASTA format for sequences and is compatible with most tools
      that read FASTA.
    meaning: edam:format_3281
    title: A2M
  edam:format_3284:
    text: edam:format_3284
    description: Standard flowgram format (SFF) is a binary file format used to encode
      results of pyrosequencing from the 454 Life Sciences platform for high-throughput
      sequencing.
    meaning: edam:format_3284
    title: SFF
  edam:format_3285:
    text: edam:format_3285
    description: The MAP file describes SNPs and is used by the Plink package.
    meaning: edam:format_3285
    title: MAP
  edam:format_3286:
    text: edam:format_3286
    description: The PED file describes individuals and genetic data and is used by
      the Plink package.
    meaning: edam:format_3286
    title: PED
  edam:format_3287:
    text: edam:format_3287
    description: Data format for a metadata on an individual and their genetic data.
    meaning: edam:format_3287
    title: Individual genetic data format
  edam:format_3288:
    text: edam:format_3288
    description: The PED/MAP file describes data used by the Plink package.
    meaning: edam:format_3288
    title: PED/MAP
  edam:format_3309:
    text: edam:format_3309
    description: File format of a CT (Connectivity Table) file from the RNAstructure
      package.
    meaning: edam:format_3309
    title: CT
  edam:format_3310:
    text: edam:format_3310
    description: XRNA old input style format.
    meaning: edam:format_3310
    title: SS
  edam:format_3311:
    text: edam:format_3311
    description: RNA Markup Language.
    meaning: edam:format_3311
    title: RNAML
  edam:format_3312:
    text: edam:format_3312
    description: Format for the Genetic Data Environment (GDE).
    meaning: edam:format_3312
    title: GDE
  edam:format_3313:
    text: edam:format_3313
    description: A multiple alignment in vertical format, as used in the AMPS (Alignment
      of Multiple Protein Sequences) package.
    meaning: edam:format_3313
    title: BLC
  edam:format_3326:
    text: edam:format_3326
    description: Format of a data index of some type.
    meaning: edam:format_3326
    title: Data index format
  edam:format_3327:
    text: edam:format_3327
    description: BAM indexing format.
    meaning: edam:format_3327
    title: BAI
  edam:format_3328:
    text: edam:format_3328
    description: HMMER profile HMM file for HMMER versions 2.x.
    meaning: edam:format_3328
    title: HMMER2
  edam:format_3329:
    text: edam:format_3329
    description: HMMER profile HMM file for HMMER versions 3.x.
    meaning: edam:format_3329
    title: HMMER3
  edam:format_3330:
    text: edam:format_3330
    description: PO is the output format of Partial Order Alignment program (POA)
      performing Multiple Sequence Alignment (MSA).
    meaning: edam:format_3330
    title: PO
  edam:format_3331:
    text: edam:format_3331
    description: XML format as produced by the NCBI Blast package.
    meaning: edam:format_3331
    title: BLAST XML results format
  edam:format_3462:
    text: edam:format_3462
    description: Reference-based compression of alignment format.
    meaning: edam:format_3462
    title: CRAM
  edam:format_3464:
    text: edam:format_3464
    description: JavaScript Object Notation format; a lightweight, text-based format
      to represent tree-structured data using key-value pairs.
    meaning: edam:format_3464
    title: JSON
  edam:format_3466:
    text: edam:format_3466
    description: Encapsulated PostScript format.
    meaning: edam:format_3466
    title: EPS
  edam:format_3467:
    text: edam:format_3467
    description: Graphics Interchange Format.
    meaning: edam:format_3467
    title: GIF
  edam:format_3468:
    text: edam:format_3468
    description: Microsoft Excel spreadsheet format.
    meaning: edam:format_3468
    title: xls
  edam:format_3475:
    text: edam:format_3475
    description: Tabular data represented as tab-separated values in a text file.
    meaning: edam:format_3475
    title: TSV
  edam:format_3477:
    text: edam:format_3477
    description: Format of the cytoscape input file of gene expression ratios or values
      are specified over one or more experiments.
    meaning: edam:format_3477
    title: Cytoscape input file format
  edam:format_3484:
    text: edam:format_3484
    description: Bowtie format for indexed reference genome for "small" genomes.
    meaning: edam:format_3484
    title: ebwt
  edam:format_3485:
    text: edam:format_3485
    description: Rich sequence format.
    meaning: edam:format_3485
    title: RSF
  edam:format_3486:
    text: edam:format_3486
    description: Some format based on the GCG format.
    meaning: edam:format_3486
    title: GCG format variant
  edam:format_3487:
    text: edam:format_3487
    description: Bioinformatics Sequence Markup Language format.
    meaning: edam:format_3487
    title: BSML
  edam:format_3491:
    text: edam:format_3491
    description: Bowtie format for indexed reference genome for "large" genomes.
    meaning: edam:format_3491
    title: ebwtl
  edam:format_3499:
    text: edam:format_3499
    description: Ensembl standard format for variation data.
    meaning: edam:format_3499
    title: Ensembl variation file format
  edam:format_3506:
    text: edam:format_3506
    description: Microsoft Word format.
    meaning: edam:format_3506
    title: docx
  edam:format_3507:
    text: edam:format_3507
    description: Format of documents including word processor, spreadsheet and presentation.
    meaning: edam:format_3507
    title: Document format
  edam:format_3508:
    text: edam:format_3508
    description: Portable Document Format.
    meaning: edam:format_3508
    title: PDF
  edam:format_3547:
    text: edam:format_3547
    description: Format used for images and image metadata.
    meaning: edam:format_3547
    title: Image format
  edam:format_3548:
    text: edam:format_3548
    description: Medical image format corresponding to the Digital Imaging and Communications
      in Medicine (DICOM) standard.
    meaning: edam:format_3548
    title: DICOM format
  edam:format_3549:
    text: edam:format_3549
    description: An open file format from the Neuroimaging Informatics Technology
      Initiative (NIfTI) commonly used to store brain imaging data obtained using
      Magnetic Resonance Imaging (MRI) methods.
    meaning: edam:format_3549
    title: nii
  edam:format_3550:
    text: edam:format_3550
    description: Text-based tagged file format for medical images generated using
      the MetaImage software package.
    meaning: edam:format_3550
    title: mhd
  edam:format_3551:
    text: edam:format_3551
    description: Nearly Raw Rasta Data format designed to support scientific visualisation
      and image processing involving N-dimensional raster data.
    meaning: edam:format_3551
    title: nrrd
  edam:format_3554:
    text: edam:format_3554
    description: File format used for scripts written in the R programming language
      for execution within the R software environment, typically for statistical computation
      and graphics.
    meaning: edam:format_3554
    title: R file format
  edam:format_3555:
    text: edam:format_3555
    description: File format used for scripts for the Statistical Package for the
      Social Sciences.
    meaning: edam:format_3555
    title: SPSS
  edam:format_3556:
    text: edam:format_3556
    description: MIME HTML format for Web pages, which can include external resources,
      including images, Flash animations and so on.
    meaning: edam:format_3556
    title: MHTML
  edam:format_3578:
    text: edam:format_3578
    description: Proprietary file format for (raw) BeadArray data used by genomewide
      profiling platforms from Illumina Inc. This format is output directly from the
      scanner and stores summary intensities for each probe-type on an array.
    meaning: edam:format_3578
    title: IDAT
  edam:format_3579:
    text: edam:format_3579
    description: Joint Picture Group file format for lossy graphics file.
    meaning: edam:format_3579
    title: JPG
  edam:format_3580:
    text: edam:format_3580
    description: Reporter Code Count-A data file (.csv) output by the Nanostring nCounter
      Digital Analyzer, which contains gene sample information, probe information
      and probe counts.
    meaning: edam:format_3580
    title: rcc
  edam:format_3581:
    text: edam:format_3581
    description: ARFF (Attribute-Relation File Format) is an ASCII text file format
      that describes a list of instances sharing a set of attributes.
    meaning: edam:format_3581
    title: arff
  edam:format_3582:
    text: edam:format_3582
    description: AFG is a single text-based file assembly format that holds read and
      consensus information together.
    meaning: edam:format_3582
    title: afg
  edam:format_3583:
    text: edam:format_3583
    description: The bedGraph format allows display of continuous-valued data in track
      format. This display type is useful for probability scores and transcriptome
      data.
    meaning: edam:format_3583
    title: bedgraph
  edam:format_3584:
    text: edam:format_3584
    description: Browser Extensible Data (BED) format of sequence annotation track
      that strictly does not contain non-standard fields beyond the first 3 columns.
    meaning: edam:format_3584
    title: bedstrict
  edam:format_3585:
    text: edam:format_3585
    description: BED file format where each feature is described by chromosome, start,
      end, name, score, and strand.
    meaning: edam:format_3585
    title: bed6
  edam:format_3586:
    text: edam:format_3586
    description: A BED file where each feature is described by all twelve columns.
    meaning: edam:format_3586
    title: bed12
  edam:format_3587:
    text: edam:format_3587
    description: Tabular format of chromosome names and sizes used by Galaxy.
    meaning: edam:format_3587
    title: chrominfo
  edam:format_3588:
    text: edam:format_3588
    description: Custom Sequence annotation track format used by Galaxy.
    meaning: edam:format_3588
    title: customtrack
  edam:format_3589:
    text: edam:format_3589
    description: Color space FASTA format sequence variant.
    meaning: edam:format_3589
    title: csfasta
  edam:format_3590:
    text: edam:format_3590
    description: HDF5 is a data model, library, and file format for storing and managing
      data, based on Hierarchical Data Format (HDF).
    meaning: edam:format_3590
    title: HDF5
  edam:format_3591:
    text: edam:format_3591
    description: A versatile bitmap format.
    meaning: edam:format_3591
    title: TIFF
  edam:format_3592:
    text: edam:format_3592
    description: Standard bitmap storage format in the Microsoft Windows environment.
    meaning: edam:format_3592
    title: BMP
  edam:format_3593:
    text: edam:format_3593
    description: IM is a format used by LabEye and other applications based on the
      IFUNC image processing library.
    meaning: edam:format_3593
    title: im
  edam:format_3594:
    text: edam:format_3594
    description: Photo CD format, which is the highest resolution format for images
      on a CD.
    meaning: edam:format_3594
    title: pcd
  edam:format_3595:
    text: edam:format_3595
    description: PCX is an image file format that uses a simple form of run-length
      encoding. It is lossless.
    meaning: edam:format_3595
    title: pcx
  edam:format_3596:
    text: edam:format_3596
    description: The PPM format is a lowest common denominator color image file format.
    meaning: edam:format_3596
    title: ppm
  edam:format_3597:
    text: edam:format_3597
    description: PSD (Photoshop Document) is a proprietary file that allows the user
      to work with the images' individual layers even after the file has been saved.
    meaning: edam:format_3597
    title: psd
  edam:format_3598:
    text: edam:format_3598
    description: X BitMap is a plain text binary image format used by the X Window
      System used for storing cursor and icon bitmaps used in the X GUI.
    meaning: edam:format_3598
    title: xbm
  edam:format_3599:
    text: edam:format_3599
    description: X PixMap (XPM) is an image file format used by the X Window System,
      it is intended primarily for creating icon pixmaps, and supports transparent
      pixels.
    meaning: edam:format_3599
    title: xpm
  edam:format_3600:
    text: edam:format_3600
    description: RGB file format is the native raster graphics file format for Silicon
      Graphics workstations.
    meaning: edam:format_3600
    title: rgb
  edam:format_3601:
    text: edam:format_3601
    description: The PBM format is a lowest common denominator monochrome file format.
      It serves as the common language of a large family of bitmap image conversion
      filters.
    meaning: edam:format_3601
    title: pbm
  edam:format_3602:
    text: edam:format_3602
    description: The PGM format is a lowest common denominator grayscale file format.
    meaning: edam:format_3602
    title: pgm
  edam:format_3603:
    text: edam:format_3603
    description: PNG is a file format for image compression.
    meaning: edam:format_3603
    title: PNG
  edam:format_3604:
    text: edam:format_3604
    description: Scalable Vector Graphics (SVG) is an XML-based vector image format
      for two-dimensional graphics with support for interactivity and animation.
    meaning: edam:format_3604
    title: SVG
  edam:format_3605:
    text: edam:format_3605
    description: Sun Raster is a raster graphics file format used on SunOS by Sun
      Microsystems.
    meaning: edam:format_3605
    title: rast
  edam:format_3606:
    text: edam:format_3606
    description: Textual report format for sequence quality for reports from sequencing
      machines.
    meaning: edam:format_3606
    title: Sequence quality report format (text)
  edam:format_3607:
    text: edam:format_3607
    description: FASTQ format subset for Phred sequencing quality score data only
      (no sequences).
    meaning: edam:format_3607
    title: qual
  edam:format_3608:
    text: edam:format_3608
    description: FASTQ format subset for Phred sequencing quality score data only
      (no sequences) for Solexa/Illumina 1.0 format.
    meaning: edam:format_3608
    title: qualsolexa
  edam:format_3609:
    text: edam:format_3609
    description: FASTQ format subset for Phred sequencing quality score data only
      (no sequences) from Illumina 1.5 and before Illumina 1.8.
    meaning: edam:format_3609
    title: qualillumina
  edam:format_3610:
    text: edam:format_3610
    description: FASTQ format subset for Phred sequencing quality score data only
      (no sequences) for SOLiD data.
    meaning: edam:format_3610
    title: qualsolid
  edam:format_3611:
    text: edam:format_3611
    description: FASTQ format subset for Phred sequencing quality score data only
      (no sequences) from 454 sequencers.
    meaning: edam:format_3611
    title: qual454
  edam:format_3612:
    text: edam:format_3612
    description: Human ENCODE peak format.
    meaning: edam:format_3612
    title: ENCODE peak format
  edam:format_3613:
    text: edam:format_3613
    description: Human ENCODE narrow peak format.
    meaning: edam:format_3613
    title: ENCODE narrow peak format
  edam:format_3614:
    text: edam:format_3614
    description: Human ENCODE broad peak format.
    meaning: edam:format_3614
    title: ENCODE broad peak format
  edam:format_3615:
    text: edam:format_3615
    description: Blocked GNU Zip format.
    meaning: edam:format_3615
    title: bgzip
  edam:format_3616:
    text: edam:format_3616
    description: TAB-delimited genome position file index format.
    meaning: edam:format_3616
    title: tabix
  edam:format_3617:
    text: edam:format_3617
    description: Data format for graph data.
    meaning: edam:format_3617
    title: Graph format
  edam:format_3618:
    text: edam:format_3618
    description: XML-based format used to store graph descriptions within Galaxy.
    meaning: edam:format_3618
    title: xgmml
  edam:format_3619:
    text: edam:format_3619
    description: SIF (simple interaction file) Format - a network/pathway format used
      for instance in cytoscape.
    meaning: edam:format_3619
    title: sif
  edam:format_3620:
    text: edam:format_3620
    description: MS Excel spreadsheet format consisting of a set of XML documents
      stored in a ZIP-compressed file.
    meaning: edam:format_3620
    title: xlsx
  edam:format_3621:
    text: edam:format_3621
    description: Data format used by the SQLite database.
    meaning: edam:format_3621
    title: SQLite format
  edam:format_3622:
    text: edam:format_3622
    description: Data format used by the SQLite database conformant to the Gemini
      schema.
    meaning: edam:format_3622
    title: Gemini SQLite format
  edam:format_3624:
    text: edam:format_3624
    description: An index of a genome database, indexed for use by the snpeff tool.
    meaning: edam:format_3624
    title: snpeffdb
  edam:format_3626:
    text: edam:format_3626
    description: Binary format used by MATLAB files to store workspace variables.
    meaning: edam:format_3626
    title: MAT
  edam:format_3650:
    text: edam:format_3650
    description: Format used by netCDF software library for writing and reading chromatography-MS
      data files. Also used to store trajectory atom coordinates information, such
      as the ones obtained by Molecular Dynamics simulations.
    meaning: edam:format_3650
    title: NetCDF
  edam:format_3651:
    text: edam:format_3651
    description: Mascot Generic Format. Encodes multiple MS/MS spectra in a single
      file.
    meaning: edam:format_3651
    title: MGF
  edam:format_3652:
    text: edam:format_3652
    description: Spectral data format file where each spectrum is written to a separate
      file.
    meaning: edam:format_3652
    title: dta
  edam:format_3653:
    text: edam:format_3653
    description: Spectral data file similar to dta.
    meaning: edam:format_3653
    title: pkl
  edam:format_3654:
    text: edam:format_3654
    description: Common file format for proteomics mass spectrometric data developed
      at the Seattle Proteome Center/Institute for Systems Biology.
    meaning: edam:format_3654
    title: mzXML
  edam:format_3655:
    text: edam:format_3655
    description: Open data format for the storage, exchange, and processing of peptide
      sequence assignments of MS/MS scans, intended to provide a common data output
      format for many different MS/MS search engines and subsequent peptide-level
      analyses.
    meaning: edam:format_3655
    title: pepXML
  edam:format_3657:
    text: edam:format_3657
    description: Graphical Pathway Markup Language (GPML) is an XML format used for
      exchanging biological pathways.
    meaning: edam:format_3657
    title: GPML
  edam:format_3665:
    text: edam:format_3665
    description: A list of k-mers and their occurrences in a dataset. Can also be
      used as an implicit De Bruijn graph.
    meaning: edam:format_3665
    title: K-mer countgraph
  edam:format_3681:
    text: edam:format_3681
    description: mzTab is a light-weight, tab-delimited format for mass spectrometry-based
      proteomics data.
    meaning: edam:format_3681
    title: mzTab
  edam:format_3682:
    text: edam:format_3682
    description: imzML metadata is a data format for mass spectrometry imaging metadata.
    meaning: edam:format_3682
    title: imzML metadata file
  edam:format_3683:
    text: edam:format_3683
    description: qcML is an XML format for quality-related data of mass spectrometry
      and other high-throughput measurements.
    meaning: edam:format_3683
    title: qcML
  edam:format_3684:
    text: edam:format_3684
    description: PRIDE XML is an XML format for mass spectra, peptide and protein
      identifications, and metadata about a corresponding measurement, sample, experiment.
    meaning: edam:format_3684
    title: PRIDE XML
  edam:format_3685:
    text: edam:format_3685
    description: Simulation Experiment Description Markup Language (SED-ML) is an
      XML format for encoding simulation setups, according to the MIASE (Minimum Information
      About a Simulation Experiment) requirements.
    meaning: edam:format_3685
    title: SED-ML
  edam:format_3686:
    text: edam:format_3686
    description: Open Modeling EXchange format (OMEX) is a ZIPped format for encapsulating
      all information necessary for a modeling and simulation project in systems biology.
    meaning: edam:format_3686
    title: COMBINE OMEX
  edam:format_3687:
    text: edam:format_3687
    description: ISA-Tab stands for Investigation / Study / Assay (ISA) tab-delimited
      (Tab) format, and it is comprised of metadata describing observational or experimental
      scientific studies.
    meaning: edam:format_3687
    title: ISA-Tab
  edam:format_3688:
    text: edam:format_3688
    description: SBtab is a tabular format for biochemical network models.
    meaning: edam:format_3688
    title: SBtab
  edam:format_3689:
    text: edam:format_3689
    description: Biological Connection Markup Language (BCML) is an XML format for
      biological pathways.
    meaning: edam:format_3689
    title: BCML
  edam:format_3690:
    text: edam:format_3690
    description: Biological Dynamics Markup Language (BDML) is an XML format for quantitative
      data describing biological dynamics.
    meaning: edam:format_3690
    title: BDML
  edam:format_3691:
    text: edam:format_3691
    description: Biological Expression Language (BEL) is a textual format for representing
      scientific findings in life sciences in a computable form.
    meaning: edam:format_3691
    title: BEL
  edam:format_3692:
    text: edam:format_3692
    description: SBGN-ML is an XML format for Systems Biology Graphical Notation (SBGN)
      diagrams of biological pathways or networks.
    meaning: edam:format_3692
    title: SBGN-ML
  edam:format_3693:
    text: edam:format_3693
    description: AGP is a tabular format for a sequence assembly (a contig, a scaffold/supercontig,
      or a chromosome).
    meaning: edam:format_3693
    title: AGP
  edam:format_3696:
    text: edam:format_3696
    description: PostScript format.
    meaning: edam:format_3696
    title: PS
  edam:format_3698:
    text: edam:format_3698
    description: SRA archive format (SRA) is the archive format used for input to
      the NCBI Sequence Read Archive.
    meaning: edam:format_3698
    title: SRA format
  edam:format_3699:
    text: edam:format_3699
    description: VDB ('vertical database') is the native format used for export from
      the NCBI Sequence Read Archive.
    meaning: edam:format_3699
    title: VDB
  edam:format_3701:
    text: edam:format_3701
    description: A five-column, tab-delimited table of feature locations and qualifiers
      for importing annotation into an existing Sequin submission (an NCBI tool for
      submitting and updating GenBank entries).
    meaning: edam:format_3701
    title: Sequin format
  edam:format_3702:
    text: edam:format_3702
    description: Proprietary mass-spectrometry format of Thermo Scientific's ProteomeDiscoverer
      software.
    meaning: edam:format_3702
    title: MSF
  edam:format_3706:
    text: edam:format_3706
    description: Data format for biodiversity data.
    meaning: edam:format_3706
    title: Biodiversity data format
  edam:format_3708:
    text: edam:format_3708
    description: Exchange format of the Access to Biological Collections Data (ABCD)
      Schema; a standard for the access to and exchange of data about specimens and
      observations (primary biodiversity data).
    meaning: edam:format_3708
    title: ABCD format
  edam:format_3709:
    text: edam:format_3709
    description: Tab-delimited text files of GenePattern that contain a column for
      each sample, a row for each gene, and an expression value for each gene in each
      sample.
    meaning: edam:format_3709
    title: GCT/Res format
  edam:format_3710:
    text: edam:format_3710
    description: Mass spectrum file format from QSTAR and QTRAP instruments (ABI/Sciex).
    meaning: edam:format_3710
    title: WIFF format
  edam:format_3711:
    text: edam:format_3711
    description: Output format used by X! series search engines that is based on the
      XML language BIOML.
    meaning: edam:format_3711
    title: X!Tandem XML
  edam:format_3712:
    text: edam:format_3712
    description: Proprietary file format for mass spectrometry data from Thermo Scientific.
    meaning: edam:format_3712
    title: Thermo RAW
  edam:format_3713:
    text: edam:format_3713
    description: '"Raw" result file from Mascot database search.'
    meaning: edam:format_3713
    title: Mascot .dat file
  edam:format_3714:
    text: edam:format_3714
    description: Format of peak list files from Andromeda search engine (MaxQuant)
      that consist of arbitrarily many spectra.
    meaning: edam:format_3714
    title: MaxQuant APL peaklist format
  edam:format_3725:
    text: edam:format_3725
    description: Synthetic Biology Open Language (SBOL) is an XML format for the specification
      and exchange of biological design information in synthetic biology.
    meaning: edam:format_3725
    title: SBOL
  edam:format_3726:
    text: edam:format_3726
    description: PMML uses XML to represent mining models. The structure of the models
      is described by an XML Schema.
    meaning: edam:format_3726
    title: PMML
  edam:format_3727:
    text: edam:format_3727
    description: Image file format used by the Open Microscopy Environment (OME).
    meaning: edam:format_3727
    title: OME-TIFF
  edam:format_3728:
    text: edam:format_3728
    description: The LocARNA PP format combines sequence or alignment information
      and (respectively, single or consensus) ensemble probabilities into an PP 2.0
      record.
    meaning: edam:format_3728
    title: LocARNA PP
  edam:format_3729:
    text: edam:format_3729
    description: Input format used by the Database of Genotypes and Phenotypes (dbGaP).
    meaning: edam:format_3729
    title: dbGaP format
  edam:format_3746:
    text: edam:format_3746
    description: The BIological Observation Matrix (BIOM) is a format for representing
      biological sample by observation contingency tables in broad areas of comparative
      omics. The primary use of this format is to represent OTU tables and metagenome
      tables.
    meaning: edam:format_3746
    title: BIOM format
  edam:format_3747:
    text: edam:format_3747
    description: A format for storage, exchange, and processing of protein identifications
      created from ms/ms-derived peptide sequence data.
    meaning: edam:format_3747
    title: protXML
  edam:format_3748:
    text: edam:format_3748
    description: A linked data format enables publishing structured data as linked
      data (Linked Data), so that the data can be interlinked and become more useful
      through semantic queries.
    meaning: edam:format_3748
    title: Linked data format
  edam:format_3749:
    text: edam:format_3749
    description: JSON-LD, or JavaScript Object Notation for Linked Data, is a method
      of encoding Linked Data using JSON.
    meaning: edam:format_3749
    title: JSON-LD
  edam:format_3750:
    text: edam:format_3750
    description: YAML (YAML Ain't Markup Language) is a human-readable tree-structured
      data serialisation language.
    meaning: edam:format_3750
    title: YAML
  edam:format_3751:
    text: edam:format_3751
    description: Tabular data represented as values in a text file delimited by some
      character.
    meaning: edam:format_3751
    title: DSV
  edam:format_3752:
    text: edam:format_3752
    description: Tabular data represented as comma-separated values in a text file.
    meaning: edam:format_3752
    title: CSV
  edam:format_3758:
    text: edam:format_3758
    description: '"Raw" result file from SEQUEST database search.'
    meaning: edam:format_3758
    title: SEQUEST .out file
  edam:format_3764:
    text: edam:format_3764
    description: XML file format for files containing information about peptide identifications
      from mass spectrometry data analysis carried out with OpenMS.
    meaning: edam:format_3764
    title: idXML
  edam:format_3765:
    text: edam:format_3765
    description: Data table formatted such that it can be passed/streamed within the
      KNIME platform.
    meaning: edam:format_3765
    title: KNIME datatable format
  edam:format_3770:
    text: edam:format_3770
    description: UniProtKB XML sequence features format is an XML format available
      for downloading UniProt entries.
    meaning: edam:format_3770
    title: UniProtKB XML
  edam:format_3771:
    text: edam:format_3771
    description: UniProtKB RDF sequence features format is an RDF format available
      for downloading UniProt entries (in RDF/XML).
    meaning: edam:format_3771
    title: UniProtKB RDF
  edam:format_3772:
    text: edam:format_3772
    description: BioJSON is a BioXSD-schema-based JSON format of sequence-based data
      and some other common data - sequence records, alignments, feature records,
      references to resources, and more - optimised for integrative bioinformatics,
      web applications and APIs, and object-oriented programming.
    meaning: edam:format_3772
    title: BioJSON (BioXSD)
  edam:format_3773:
    text: edam:format_3773
    description: BioYAML is a BioXSD-schema-based YAML format of sequence-based data
      and some other common data - sequence records, alignments, feature records,
      references to resources, and more - optimised for integrative bioinformatics,
      web APIs, human readability and editing, and object-oriented programming.
    meaning: edam:format_3773
    title: BioYAML
  edam:format_3774:
    text: edam:format_3774
    description: BioJSON is a JSON format of single multiple sequence alignments,
      with their annotations, features, and custom visualisation and application settings
      for the Jalview workbench.
    meaning: edam:format_3774
    title: BioJSON (Jalview)
  edam:format_3775:
    text: edam:format_3775
    description: GSuite is a tabular format for collections of genome or sequence
      feature tracks, suitable for integrative multi-track analysis. GSuite contains
      links to genome/sequence tracks, with additional metadata.
    meaning: edam:format_3775
    title: GSuite
  edam:format_3776:
    text: edam:format_3776
    description: BTrack is an HDF5-based binary format for genome or sequence feature
      tracks and their collections, suitable for integrative multi-track analysis.
      BTrack is a binary, compressed alternative to the GTrack and GSuite formats.
    meaning: edam:format_3776
    title: BTrack
  edam:format_3777:
    text: edam:format_3777
    description: The FAO/Bioversity/IPGRI Multi-Crop Passport Descriptors (MCPD) is
      an international standard format for exchange of germplasm information.
    meaning: edam:format_3777
    title: MCPD
  edam:format_3780:
    text: edam:format_3780
    description: Data format of an annotated text, e.g. with recognised entities,
      concepts, and relations.
    meaning: edam:format_3780
    title: Annotated text format
  edam:format_3781:
    text: edam:format_3781
    description: JSON format of annotated scientific text used by PubAnnotations and
      other tools.
    meaning: edam:format_3781
    title: PubAnnotation format
  edam:format_3782:
    text: edam:format_3782
    description: BioC is a standardised XML format for sharing and integrating text
      data and annotations.
    meaning: edam:format_3782
    title: BioC
  edam:format_3783:
    text: edam:format_3783
    description: Native textual export format of annotated scientific text from PubTator.
    meaning: edam:format_3783
    title: PubTator format
  edam:format_3784:
    text: edam:format_3784
    description: A format of text annotation using the linked-data Open Annotation
      Data Model, serialised typically in RDF or JSON-LD.
    meaning: edam:format_3784
    title: Open Annotation format
  edam:format_3785:
    text: edam:format_3785
    description: A family of similar formats of text annotation, used by BRAT and
      other tools, known as BioNLP Shared Task format (BioNLP 2009 Shared Task on
      Event Extraction, BioNLP Shared Task 2011, BioNLP Shared Task 2013), BRAT format,
      BRAT standoff format, and similar.
    meaning: edam:format_3785
    title: BioNLP Shared Task format
  edam:format_3787:
    text: edam:format_3787
    description: A query language (format) for structured database queries.
    meaning: edam:format_3787
    title: Query language
  edam:format_3788:
    text: edam:format_3788
    description: SQL (Structured Query Language) is the de-facto standard query language
      (format of queries) for querying and manipulating data in relational databases.
    meaning: edam:format_3788
    title: SQL
  edam:format_3789:
    text: edam:format_3789
    description: XQuery (XML Query) is a query language (format of queries) for querying
      and manipulating structured and unstructured data, usually in the form of XML,
      text, and with vendor-specific extensions for other data formats (JSON, binary,
      etc.).
    meaning: edam:format_3789
    title: XQuery
  edam:format_3790:
    text: edam:format_3790
    description: SPARQL (SPARQL Protocol and RDF Query Language) is a semantic query
      language for querying and manipulating data stored in Resource Description Framework
      (RDF) format.
    meaning: edam:format_3790
    title: SPARQL
  edam:format_3804:
    text: edam:format_3804
    description: XML format for XML Schema.
    meaning: edam:format_3804
    title: xsd
  edam:format_3811:
    text: edam:format_3811
    description: XMFA format stands for eXtended Multi-FastA format and is used to
      store collinear sub-alignments that constitute a single genome alignment.
    meaning: edam:format_3811
    title: XMFA
  edam:format_3812:
    text: edam:format_3812
    description: The GEN file format contains genetic data and describes SNPs.
    meaning: edam:format_3812
    title: GEN
  edam:format_3813:
    text: edam:format_3813
    description: The SAMPLE file format contains information about each individual
      i.e. individual IDs, covariates, phenotypes and missing data proportions, from
      a GWAS study.
    meaning: edam:format_3813
    title: SAMPLE file format
  edam:format_3814:
    text: edam:format_3814
    description: SDF is one of a family of chemical-data file formats developed by
      MDL Information Systems; it is intended especially for structural information.
    meaning: edam:format_3814
    title: SDF
  edam:format_3815:
    text: edam:format_3815
    description: An MDL Molfile is a file format for holding information about the
      atoms, bonds, connectivity and coordinates of a molecule.
    meaning: edam:format_3815
    title: Molfile
  edam:format_3816:
    text: edam:format_3816
    description: Complete, portable representation of a SYBYL molecule. ASCII file
      which contains all the information needed to reconstruct a SYBYL molecule.
    meaning: edam:format_3816
    title: Mol2
  edam:format_3817:
    text: edam:format_3817
    description: format for the LaTeX document preparation system.
    meaning: edam:format_3817
    title: latex
  edam:format_3818:
    text: edam:format_3818
    description: Tab-delimited text file format used by Eland - the read-mapping program
      distributed by Illumina with its sequencing analysis pipeline - which maps short
      Solexa sequence reads to the human reference genome.
    meaning: edam:format_3818
    title: ELAND format
  edam:format_3819:
    text: edam:format_3819
    description: Phylip multiple alignment sequence format, less stringent than PHYLIP
      format.
    meaning: edam:format_3819
    title: Relaxed PHYLIP Interleaved
  edam:format_3820:
    text: edam:format_3820
    description: Phylip multiple alignment sequence format, less stringent than PHYLIP
      sequential format (format_1998).
    meaning: edam:format_3820
    title: Relaxed PHYLIP Sequential
  edam:format_3821:
    text: edam:format_3821
    description: Default XML format of VisANT, containing all the network information.
    meaning: edam:format_3821
    title: VisML
  edam:format_3822:
    text: edam:format_3822
    description: GML (Graph Modeling Language) is a text file format supporting network
      data with a very easy syntax. It is used by Graphlet, Pajek, yEd, LEDA and NetworkX.
    meaning: edam:format_3822
    title: GML
  edam:format_3823:
    text: edam:format_3823
    description: FASTG is a format for faithfully representing genome assemblies in
      the face of allelic polymorphism and assembly uncertainty.
    meaning: edam:format_3823
    title: FASTG
  edam:format_3824:
    text: edam:format_3824
    description: Data format for raw data from a nuclear magnetic resonance (NMR)
      spectroscopy experiment.
    meaning: edam:format_3824
    title: NMR data format
  edam:format_3825:
    text: edam:format_3825
    description: nmrML is an MSI supported XML-based open access format for metabolomics
      NMR raw and processed spectral data. It is accompanies by an nmrCV (controlled
      vocabulary) to allow ontology-based annotations.
    meaning: edam:format_3825
    title: nmrML
  edam:format_3826:
    text: edam:format_3826
    description: . proBAM is an adaptation of BAM (format_2572), which was extended
      to meet specific requirements entailed by proteomics data.
    meaning: edam:format_3826
    title: proBAM
  edam:format_3827:
    text: edam:format_3827
    description: . proBED is an adaptation of BED (format_3003), which was extended
      to meet specific requirements entailed by proteomics data.
    meaning: edam:format_3827
    title: proBED
  edam:format_3828:
    text: edam:format_3828
    description: Data format for raw microarray data.
    meaning: edam:format_3828
    title: Raw microarray data format
  edam:format_3829:
    text: edam:format_3829
    description: GenePix Results (GPR) text file format developed by Axon Instruments
      that is used to save GenePix Results data.
    meaning: edam:format_3829
    title: GPR
  edam:format_3830:
    text: edam:format_3830
    description: Binary format used by the ARB software suite.
    meaning: edam:format_3830
    title: ARB
  edam:format_3832:
    text: edam:format_3832
    description: OpenMS format for grouping features in one map or across several
      maps.
    meaning: edam:format_3832
    title: consensusXML
  edam:format_3833:
    text: edam:format_3833
    description: OpenMS format for quantitation results (LC/MS features).
    meaning: edam:format_3833
    title: featureXML
  edam:format_3834:
    text: edam:format_3834
    description: Now deprecated data format of the HUPO Proteomics Standards Initiative.
      Replaced by mzML (format_3244).
    meaning: edam:format_3834
    title: mzData
  edam:format_3835:
    text: edam:format_3835
    description: Format supported by the Tide tool for identifying peptides from tandem
      mass spectra.
    meaning: edam:format_3835
    title: TIDE TXT
  edam:format_3836:
    text: edam:format_3836
    description: XML format as produced by the NCBI Blast package v2.
    meaning: edam:format_3836
    title: BLAST XML v2 results format
  edam:format_3838:
    text: edam:format_3838
    description: Microsoft Powerpoint format.
    meaning: edam:format_3838
    title: pptx
  edam:format_3839:
    text: edam:format_3839
    description: ibd is a data format for mass spectrometry imaging data.
    meaning: edam:format_3839
    title: ibd
  edam:format_3841:
    text: edam:format_3841
    description: Data format used in Natural Language Processing.
    meaning: edam:format_3841
    title: NLP format
  edam:format_3843:
    text: edam:format_3843
    description: XML input file format for BEAST Software (Bayesian Evolutionary Analysis
      Sampling Trees).
    meaning: edam:format_3843
    title: BEAST
  edam:format_3844:
    text: edam:format_3844
    description: Chado-XML format is a direct mapping of the Chado relational schema
      into XML.
    meaning: edam:format_3844
    title: Chado-XML
  edam:format_3845:
    text: edam:format_3845
    description: 'An alignment format generated by PRANK/PRANKSTER consisting of four
      elements: newick, nodes, selection and model.'
    meaning: edam:format_3845
    title: HSAML
  edam:format_3846:
    text: edam:format_3846
    description: Output xml file from the InterProScan sequence analysis application.
    meaning: edam:format_3846
    title: InterProScan XML
  edam:format_3847:
    text: edam:format_3847
    description: The KEGG Markup Language (KGML) is an exchange format of the KEGG
      pathway maps, which is converted from internally used KGML+ (KGML+SVG) format.
    meaning: edam:format_3847
    title: KGML
  edam:format_3848:
    text: edam:format_3848
    description: XML format for collected entries from bibliographic databases MEDLINE
      and PubMed.
    meaning: edam:format_3848
    title: PubMed XML
  edam:format_3849:
    text: edam:format_3849
    description: A set of XML compliant markup components for describing multiple
      sequence alignments.
    meaning: edam:format_3849
    title: MSAML
  edam:format_3850:
    text: edam:format_3850
    description: OrthoXML is designed broadly to allow the storage and comparison
      of orthology data from any ortholog database. It establishes a structure for
      describing orthology relationships while still allowing flexibility for database-specific
      information to be encapsulated in the same format.
    meaning: edam:format_3850
    title: OrthoXML
  edam:format_3851:
    text: edam:format_3851
    description: Tree structure of Protein Sequence Database Markup Language generated
      using Matra software.
    meaning: edam:format_3851
    title: PSDML
  edam:format_3852:
    text: edam:format_3852
    description: SeqXML is an XML Schema to describe biological sequences, developed
      by the Stockholm Bioinformatics Centre.
    meaning: edam:format_3852
    title: SeqXML
  edam:format_3853:
    text: edam:format_3853
    description: XML format for the UniParc database.
    meaning: edam:format_3853
    title: UniParc XML
  edam:format_3854:
    text: edam:format_3854
    description: XML format for the UniRef reference clusters.
    meaning: edam:format_3854
    title: UniRef XML
  edam:format_3857:
    text: edam:format_3857
    description: Common Workflow Language (CWL) format for description of command-line
      tools and workflows.
    meaning: edam:format_3857
    title: CWL
  edam:format_3858:
    text: edam:format_3858
    description: Proprietary file format for mass spectrometry data from Waters.
    meaning: edam:format_3858
    title: Waters RAW
  edam:format_3859:
    text: edam:format_3859
    description: A standardized file format for data exchange in mass spectrometry,
      initially developed for infrared spectrometry.
    meaning: edam:format_3859
    title: JCAMP-DX
  edam:format_3862:
    text: edam:format_3862
    description: An NLP format used for annotated textual documents.
    meaning: edam:format_3862
    title: NLP annotation format
  edam:format_3863:
    text: edam:format_3863
    description: NLP format used by a specific type of corpus (collection of texts).
    meaning: edam:format_3863
    title: NLP corpus format
  edam:format_3864:
    text: edam:format_3864
    description: mirGFF3 is a common format for microRNA data resulting from small-RNA
      RNA-Seq workflows.
    meaning: edam:format_3864
    title: mirGFF3
  edam:format_3865:
    text: edam:format_3865
    description: A "placeholder" concept for formats of annotated RNA data, including
      e.g. microRNA and RNA-Seq data.
    meaning: edam:format_3865
    title: RNA annotation format
  edam:format_3866:
    text: edam:format_3866
    description: File format to store trajectory information for a 3D structure .
    meaning: edam:format_3866
    title: Trajectory format
  edam:format_3867:
    text: edam:format_3867
    description: Binary file format to store trajectory information for a 3D structure
      .
    meaning: edam:format_3867
    title: Trajectory format (binary)
  edam:format_3868:
    text: edam:format_3868
    description: Textual file format to store trajectory information for a 3D structure
      .
    meaning: edam:format_3868
    title: Trajectory format (text)
  edam:format_3873:
    text: edam:format_3873
    description: HDF is the name of a set of file formats and libraries designed to
      store and organize large amounts of numerical data, originally developed at
      the National Center for Supercomputing Applications at the University of Illinois.
    meaning: edam:format_3873
    title: HDF
  edam:format_3874:
    text: edam:format_3874
    description: PCAZip format is a binary compressed file to store atom coordinates
      based on Essential Dynamics (ED) and Principal Component Analysis (PCA).
    meaning: edam:format_3874
    title: PCAzip
  edam:format_3875:
    text: edam:format_3875
    description: Portable binary format for trajectories produced by GROMACS package.
    meaning: edam:format_3875
    title: XTC
  edam:format_3876:
    text: edam:format_3876
    description: Trajectory Next Generation (TNG) is a format for storage of molecular
      simulation data. It is designed and implemented by the GROMACS development group,
      and it is called to be the substitute of the XTC format.
    meaning: edam:format_3876
    title: TNG
  edam:format_3877:
    text: edam:format_3877
    description: The XYZ chemical file format is widely supported by many programs,
      although many slightly different XYZ file formats coexist (Tinker XYZ, UniChem
      XYZ, etc.). Basic information stored for each atom in the system are x, y and
      z coordinates and atom element/atomic number.
    meaning: edam:format_3877
    title: XYZ
  edam:format_3878:
    text: edam:format_3878
    description: AMBER trajectory (also called mdcrd), with 10 coordinates per line
      and format F8.3 (fixed point notation with field width 8 and 3 decimal places).
    meaning: edam:format_3878
    title: mdcrd
  edam:format_3879:
    text: edam:format_3879
    description: Format of topology files; containing the static information of a
      structure molecular system that is needed for a molecular simulation.
    meaning: edam:format_3879
    title: Topology format
  edam:format_3880:
    text: edam:format_3880
    description: GROMACS MD package top textual files define an entire structure system
      topology, either directly, or by including itp files.
    meaning: edam:format_3880
    title: GROMACS top
  edam:format_3881:
    text: edam:format_3881
    description: AMBER Prmtop file (version 7) is a structure topology text file divided
      in several sections designed to be parsed easily using simple Fortran code.
      Each section contains particular topology information, such as atom name, charge,
      mass, angles, dihedrals, etc.
    meaning: edam:format_3881
    title: AMBER top
  edam:format_3882:
    text: edam:format_3882
    description: 'X-Plor Protein Structure Files (PSF) are structure topology files
      used by NAMD and CHARMM molecular simulations programs. PSF files contain six
      main sections of interest: atoms, bonds, angles, dihedrals, improper dihedrals
      (force terms used to maintain planarity) and cross-terms.'
    meaning: edam:format_3882
    title: PSF
  edam:format_3883:
    text: edam:format_3883
    description: GROMACS itp files (include topology) contain structure topology information,
      and are typically included in GROMACS topology files (GROMACS top). Itp files
      are used to define individual (or multiple) components of a topology as a separate
      file. This is particularly useful if there is a molecule that is used frequently,
      and also reduces the size of the system topology file, splitting it in different
      parts.
    meaning: edam:format_3883
    title: GROMACS itp
  edam:format_3884:
    text: edam:format_3884
    description: Format of force field parameter files, which store the set of parameters
      (charges, masses, radii, bond lengths, bond dihedrals, etc.) that are essential
      for the proper description and simulation of a molecular system.
    meaning: edam:format_3884
    title: FF parameter format
  edam:format_3885:
    text: edam:format_3885
    description: Scripps Research Institute BinPos format is a binary formatted file
      to store atom coordinates.
    meaning: edam:format_3885
    title: BinPos
  edam:format_3886:
    text: edam:format_3886
    description: AMBER coordinate/restart file with 6 coordinates per line and decimal
      format F12.7 (fixed point notation with field width 12 and 7 decimal places).
    meaning: edam:format_3886
    title: RST
  edam:format_3887:
    text: edam:format_3887
    description: Format of CHARMM Residue Topology Files (RTF), which define groups
      by including the atoms, the properties of the group, and bond and charge information.
    meaning: edam:format_3887
    title: CHARMM rtf
  edam:format_3888:
    text: edam:format_3888
    description: AMBER frcmod (Force field Modification) is a file format to store
      any modification to the standard force field needed for a particular molecule
      to be properly represented in the simulation.
    meaning: edam:format_3888
    title: AMBER frcmod
  edam:format_3889:
    text: edam:format_3889
    description: AMBER Object File Format library files (OFF library files) store
      residue libraries (forcefield residue parameters).
    meaning: edam:format_3889
    title: AMBER off
  edam:format_3906:
    text: edam:format_3906
    description: 'MReData is a text based data standard for processed NMR data. It
      is relying on SDF molecule data and allows to store assignments of NMR peaks
      to molecule features. The NMR-extracted data (or "NMReDATA") includes: Chemical
      shift,scalar coupling, 2D correlation, assignment, etc.'
    meaning: edam:format_3906
    title: NMReDATA
  edam:format_3909:
    text: edam:format_3909
    description: BpForms is a string format for concretely representing the primary
      structures of biopolymers, including DNA, RNA, and proteins that include non-canonical
      nucleic and amino acids. See https://www.bpforms.org for more information.
    meaning: edam:format_3909
    title: BpForms
  edam:format_3910:
    text: edam:format_3910
    description: Format of trr files that contain the trajectory of a simulation experiment
      used by GROMACS.
    meaning: edam:format_3910
    title: trr
  edam:format_3911:
    text: edam:format_3911
    description: Mash sketch is a format for sequence / sequence checksum information.
      To make a sketch, each k-mer in a sequence is hashed, which creates a pseudo-random
      identifier. By sorting these hashes, a small subset from the top of the sorted
      list can represent the entire sequence.
    meaning: edam:format_3911
    title: msh
  edam:format_3913:
    text: edam:format_3913
    description: The Loom file format is based on HDF5, a standard for storing large
      numerical datasets. The Loom format is designed to efficiently hold large omics
      datasets. Typically, such data takes the form of a large matrix of numbers,
      along with metadata for the rows and columns.
    meaning: edam:format_3913
    title: Loom
  edam:format_3915:
    text: edam:format_3915
    description: The Zarr format is an implementation of chunked, compressed, N-dimensional
      arrays for storing data.
    meaning: edam:format_3915
    title: Zarr
  edam:format_3916:
    text: edam:format_3916
    description: The Matrix Market matrix (MTX) format stores numerical or pattern
      matrices in a dense (array format) or sparse (coordinate format) representation.
    meaning: edam:format_3916
    title: MTX
  edam:format_3951:
    text: edam:format_3951
    description: BcForms is a format for abstractly describing the molecular structure
      (atoms and bonds) of macromolecular complexes as a collection of subunits and
      crosslinks. Each subunit can be described with BpForms (http://edamontology.org/format_3909)
      or SMILES (http://edamontology.org/data_2301). BcForms uses an ontology of crosslinks
      to abstract the chemical details of crosslinks from the descriptions of complexes
      (see https://bpforms.org/crosslink.html).
    meaning: edam:format_3951
    title: BcForms
  edam:format_3956:
    text: edam:format_3956
    description: N-Quads is a line-based, plain text format for encoding an RDF dataset.
      It includes information about the graph each triple belongs to.
    meaning: edam:format_3956
    title: N-Quads
  edam:format_3969:
    text: edam:format_3969
    description: Vega is a visualization grammar, a declarative language for creating,
      saving, and sharing interactive visualization designs. With Vega, you can describe
      the visual appearance and interactive behavior of a visualization in a JSON
      format, and generate web-based views using Canvas or SVG.
    meaning: edam:format_3969
    title: Vega
  edam:format_3970:
    text: edam:format_3970
    description: Vega-Lite is a high-level grammar of interactive graphics. It provides
      a concise JSON syntax for rapidly generating visualizations to support analysis.
      Vega-Lite specifications can be compiled to Vega specifications.
    meaning: edam:format_3970
    title: Vega-lite
  edam:format_3971:
    text: edam:format_3971
    description: A model description language for computational neuroscience.
    meaning: edam:format_3971
    title: NeuroML
  edam:format_3972:
    text: edam:format_3972
    description: BioNetGen is a format for the specification and simulation of rule-based
      models of biochemical systems, including signal transduction, metabolic, and
      genetic regulatory networks.
    meaning: edam:format_3972
    title: BNGL
  edam:format_3973:
    text: edam:format_3973
    description: A Docker image is a file, comprised of multiple layers, that is used
      to execute code in a Docker container. An image is essentially built from the
      instructions for a complete and executable version of an application, which
      relies on the host OS kernel.
    meaning: edam:format_3973
    title: Docker image
  edam:format_3975:
    text: edam:format_3975
    description: Graphical Fragment Assembly captures sequence graphs as the product
      of an assembly, a representation of variation in genomes, splice graphs in genes,
      or even overlap between reads from long-read sequencing technology.
    meaning: edam:format_3975
    title: GFA 1
  edam:format_3976:
    text: edam:format_3976
    description: Graphical Fragment Assembly captures sequence graphs as the product
      of an assembly, a representation of variation in genomes, splice graphs in genes,
      or even overlap between reads from long-read sequencing technology. GFA2 is
      an update of GFA1 which is not compatible with GFA1.
    meaning: edam:format_3976
    title: GFA 2
  edam:format_3977:
    text: edam:format_3977
    description: ObjTables is a toolkit for creating reusable datasets that are both
      human and machine-readable, combining the ease of spreadsheets (e.g., Excel
      workbooks) with the rigor of schemas (classes, their attributes, the type of
      each attribute, and the possible relationships between instances of classes).
      ObjTables consists of a format for describing schemas for spreadsheets, numerous
      data types for science, a syntax for indicating the class and attribute represented
      by each table and column in a workbook, and software for using schemas to rigorously
      validate, merge, split, compare, and revision datasets.
    meaning: edam:format_3977
    title: ObjTables
  edam:format_3978:
    text: edam:format_3978
    description: The CONTIG format used for output of the SOAPdenovo alignment program.
      It contains contig sequences generated without using mate pair information.
    meaning: edam:format_3978
    title: CONTIG
  edam:format_3979:
    text: edam:format_3979
    description: WEGO native format used by the Web Gene Ontology Annotation Plot
      application.   Tab-delimited format with gene names and others GO IDs (columns)
      with one annotation record per line.
    meaning: edam:format_3979
    title: WEGO
  edam:format_3980:
    text: edam:format_3980
    description: Tab-delimited format for gene expression levels table, calculated
      as Reads Per Kilobase per Million (RPKM) mapped reads.
    meaning: edam:format_3980
    title: RPKM
  edam:format_3981:
    text: edam:format_3981
    description: TAR archive file format generated by the Unix-based utility tar.
    meaning: edam:format_3981
    title: TAR format
  edam:format_3982:
    text: edam:format_3982
    description: The CHAIN format describes a pairwise alignment that allow gaps in
      both sequences simultaneously and is used by the UCSC Genome Browser.
    meaning: edam:format_3982
    title: CHAIN
  edam:format_3983:
    text: edam:format_3983
    description: The NET file format is used to describe the data that underlie the
      net alignment annotations in the UCSC Genome Browser.
    meaning: edam:format_3983
    title: NET
  edam:format_3984:
    text: edam:format_3984
    description: Format of QMAP files generated for methylation data from an internal
      BGI pipeline.
    meaning: edam:format_3984
    title: QMAP
  edam:format_3985:
    text: edam:format_3985
    description: An emerging format for high-level Galaxy workflow description.
    meaning: edam:format_3985
    title: gxformat2
  edam:format_3986:
    text: edam:format_3986
    description: The proprietary native video format of various Microsoft programs
      such as Windows Media Player.
    meaning: edam:format_3986
    title: WMV
  edam:format_3987:
    text: edam:format_3987
    description: ZIP is an archive file format that supports lossless data compression.
    meaning: edam:format_3987
    title: ZIP format
  edam:format_3988:
    text: edam:format_3988
    description: Zeiss' proprietary image format based on TIFF.
    meaning: edam:format_3988
    title: LSM
  edam:format_3989:
    text: edam:format_3989
    description: GNU zip compressed file format common to Unix-based operating systems.
    meaning: edam:format_3989
    title: GZIP format
  edam:format_3990:
    text: edam:format_3990
    description: Audio Video Interleaved (AVI) format is a multimedia container format
      for AVI files, that allows synchronous audio-with-video playback.
    meaning: edam:format_3990
    title: AVI
  edam:format_3991:
    text: edam:format_3991
    description: A declaration file format for UCSC browsers track dataset display
      characteristics.
    meaning: edam:format_3991
    title: TrackDB
  edam:format_3992:
    text: edam:format_3992
    description: Compact Idiosyncratic Gapped Alignment Report format is a compressed
      (run-length encoded) pairwise alignment format. It is useful for representing
      long (e.g. genomic) pairwise alignments.
    meaning: edam:format_3992
    title: CIGAR format
  edam:format_3993:
    text: edam:format_3993
    description: STL is a file format native to the stereolithography CAD software
      created by 3D Systems. The format is used to save and share surface-rendered
      3D images and also for 3D printing.
    meaning: edam:format_3993
    title: Stereolithography format
  edam:format_3994:
    text: edam:format_3994
    description: U3D (Universal 3D) is a compressed file format and data structure
      for 3D computer graphics. It contains 3D model information such as triangle
      meshes, lighting, shading, motion data, lines and points with color and structure.
    meaning: edam:format_3994
    title: U3D
  edam:format_3995:
    text: edam:format_3995
    description: Bitmap image format used for storing textures.
    meaning: edam:format_3995
    title: Texture file format
  edam:format_3996:
    text: edam:format_3996
    description: Format for scripts writtenin Python - a widely used high-level programming
      language for general-purpose programming.
    meaning: edam:format_3996
    title: Python script
  edam:format_3997:
    text: edam:format_3997
    description: A digital multimedia container format most commonly used to store
      video and audio.
    meaning: edam:format_3997
    title: MPEG-4
  edam:format_3998:
    text: edam:format_3998
    description: Format for scripts written in Perl - a family of high-level, general-purpose,
      interpreted, dynamic programming languages.
    meaning: edam:format_3998
    title: Perl script
  edam:format_3999:
    text: edam:format_3999
    description: Format for scripts written in the R language - an open source programming
      language and software environment for statistical computing and graphics that
      is supported by the R Foundation for Statistical Computing.
    meaning: edam:format_3999
    title: R script
  edam:format_4000:
    text: edam:format_4000
    description: A file format for making dynamic documents (R Markdown scripts) with
      the R language.
    meaning: edam:format_4000
    title: R markdown
  edam:format_4002:
    text: edam:format_4002
    description: Format used by Python pickle module for serializing and de-serializing
      a Python object structure.
    meaning: edam:format_4002
    title: pickle
  edam:format_4003:
    text: edam:format_4003
    description: The standard binary file format used by NumPy - a fundamental package
      for scientific computing with Python - for persisting a single arbitrary NumPy
      array on disk. The format stores all of the shape and dtype information necessary
      to reconstruct the array correctly.
    meaning: edam:format_4003
    title: NumPy format
  edam:format_4004:
    text: edam:format_4004
    description: Format of repertoire (archive) files that can be read by SimToolbox
      (a MATLAB toolbox for structured illumination fluorescence microscopy) or alternatively
      extracted with zip file archiver software.
    meaning: edam:format_4004
    title: SimTools repertoire file format
  edam:format_4005:
    text: edam:format_4005
    description: A configuration file used by various programs to store settings that
      are specific to their respective software.
    meaning: edam:format_4005
    title: Configuration file format
  edam:format_4006:
    text: edam:format_4006
    description: Format used by the Zstandard real-time compression algorithm.
    meaning: edam:format_4006
    title: Zstandard format
  edam:format_4007:
    text: edam:format_4007
    description: The file format for MATLAB scripts or functions.
    meaning: edam:format_4007
    title: MATLAB script
  edam:format_4015:
    text: edam:format_4015
    description: A data format for specifying parameter estimation problems in systems
      biology.
    meaning: edam:format_4015
    title: PEtab
  edam:format_4018:
    text: edam:format_4018
    description: Genomic Variant Call Format (gVCF) is a version of VCF that includes
      not only the positions that are variant when compared to a reference genome,
      but also the non-variant positions as ranges, including metrics of confidence
      that the positions in the range are actually non-variant e.g. minimum read-depth
      and genotype quality.
    meaning: edam:format_4018
    title: gVCF
  edam:format_4023:
    text: edam:format_4023
    description: Chemical Markup Language (CML) is an XML-based format for encoding
      detailed information about a wide range of chemical concepts.
    meaning: edam:format_4023
    title: cml
  edam:format_4024:
    text: edam:format_4024
    description: Crystallographic Information File (CIF) is a data exchange standard
      file format for Crystallographic Information and related Structural Science
      data.
    meaning: edam:format_4024
    title: cif
  edam:format_4025:
    text: edam:format_4025
    description: Format for describing the capabilities of a biosimulation tool including
      the modeling frameworks, simulation algorithms, and modeling formats that it
      supports, as well as metadata such as a list of the interfaces, programming
      languages, and operating systems supported by the tool; a link to download the
      tool; a list of the authors of the tool; and the license to the tool.
    meaning: edam:format_4025
    title: BioSimulators format for the specifications of biosimulation tools
  edam:format_4026:
    text: edam:format_4026
    description: Outlines the syntax and semantics of the input and output arguments
      for command-line interfaces for biosimulation tools.
    meaning: edam:format_4026
    title: BioSimulators standard for command-line interfaces for biosimulation tools
  edam:format_4035:
    text: edam:format_4035
    description: Data format derived from the standard PDB format, which enables user
      to incorporate parameters for charge and radius to the existing PDB data file.
    meaning: edam:format_4035
    title: PQR
  edam:format_4036:
    text: edam:format_4036
    description: Data format used in AutoDock 4 for storing atomic coordinates, partial
      atomic charges and AutoDock atom types for both receptors and ligands.
    meaning: edam:format_4036
    title: PDBQT
  edam:format_4039:
    text: edam:format_4039
    description: MSP is a data format for mass spectrometry data.
    meaning: edam:format_4039
    title: MSP
  edam:format_4041:
    text: edam:format_4041
    description: maDMP stands for machine-actionable data management plan, a standard
      for DMPs developed by the Research Data Alliance (RDA).
    meaning: edam:format_4041
    title: maDMP
  edam:format_4048:
    text: edam:format_4048
    description: Nextflow is a workflow system for creating scalable, portable, and
      reproducible workflows.
    meaning: edam:format_4048
    title: Nextflow
  edam:format_4049:
    text: edam:format_4049
    description: The Snakemake workflow management system is a tool to create reproducible
      and scalable data analyses.
    meaning: edam:format_4049
    title: Snakemake
  edam:format_4050:
    text: edam:format_4050
    description: Sample and Data Relationship File for a proteomics experiment.
    meaning: edam:format_4050
    title: SDRF
  edam:format_4058:
    text: edam:format_4058
    description: mzTab-M is a light-weight, tab-delimited format for mass spectrometry-based
      chemical profiling data, including metabolomics.
    meaning: edam:format_4058
    title: mzTab-M
  edam:format_4059:
    text: edam:format_4059
    description: mzTab-L is a light-weight, tab-delimited format for mass spectrometry-based
      lipidomics data. It is a compatible version of mzTab-M, with additional rules
      and information standard (reporting guidelines).
    meaning: edam:format_4059
    title: mzTab-L
  edam:format_4066:
    text: edam:format_4066
    description: ISA-Tab Investigation file (i_Investigation.txt) contains metadata
      describing the overall goals, means, and context of an investigation/experiment,
      including references to associated Study and Assay files.
    meaning: edam:format_4066
    title: ISA-Tab Investigation file
  edam:format_4067:
    text: edam:format_4067
    description: ISA-Tab Study file (s_*.txt) contains sample metadata describing
      the subjects under study, their sources, characteristics, sampling methodology,
      and any treatments or manipulations applied.
    meaning: edam:format_4067
    title: ISA-Tab Study file
  edam:format_4068:
    text: edam:format_4068
    description: ISA-Tab Assay file (a_*.txt) contains assay metadata describing test
      steps and analytical measurements performed on the sample material, including
      measurement types, technology used, and references to raw and derived data files.
    meaning: edam:format_4068
    title: ISA-Tab Assay file
  edam:format_4069:
    text: edam:format_4069
    description: ISA-JSON stands for Investigation / Study / Assay (ISA) JavaScript
      Object Notation (JSON) format, and it is comprised of metadata describing observational
      or experimental scientific studies.
    meaning: edam:format_4069
    title: ISA-JSON
  edam:format_4070:
    text: edam:format_4070
    description: mwTab is a tab-delimited text format developed by the Metabolomics
      Workbench to facilitate programmatic processing of metabolomics data and metadata
      suitable for submission to the repository.
    meaning: edam:format_4070
    title: mwTab
  edam:format_4071:
    text: edam:format_4071
    description: MHD (MetabolomicsHub Common Data Model) is a JSON-based format providing
      a standardised, FAIR-compliant data model for the exchange, discovery, and reuse
      of metabolomics dataset metadata across international repositories.
    meaning: edam:format_4071
    title: MHD
  edam:format_4072:
    text: edam:format_4072
    description: The MHD announcement file is a JSON-based format used to notify MetabolomicsHub
      of new or updated dataset submissions, serving as a manifest or notification
      file within the MHD data flow.
    meaning: edam:format_4072
    title: MHD announcement
  edam:format_4073:
    text: edam:format_4073
    description: MetaboLights MAF (Metabolite Annotation File) is a tab-separated
      file format used to report metabolites identified or annotated in a metabolomics
      study, including compound identifiers, chemical structure representations, mass-to-charge
      ratios, retention times, and per-sample quantitative measurements.
    meaning: edam:format_4073
    title: MetaboLights MAF
reachable_from:
  source_ontology: bioregistry:edam
  source_nodes:
  - edam:format_1915
  relationship_types:
  - rdfs:subClassOf
  is_direct: false
  include_self: false