Format
12 terms
Controlled vocabulary of common file formats for genomic annotation tracks,
aligned with the EDAM
ontology (Sequence-annotation-track formats) where corresponding terms exist.
Referenced by the file_format slot
of the Track Format
schema. Aligned with FGA-WG issue #1 (data formats).
BED
Browser Extensible Data: tab-delimited intervals with 3 required and up to 9 optional standard columns.
bigBed
Indexed binary form of BED for efficient random access over large datasets.
bigWig
Indexed binary form of WIG for dense continuous signal across the genome.
WIG
Wiggle: continuous-valued signal data across genomic coordinates.
bedGraph
BED-like format carrying a continuous value per interval (4-column signal).
narrowPeak
ENCODE BED6+4 format for called peaks with a single narrow point of enrichment.
broadPeak
ENCODE BED6+3 format for called peaks spanning broad regions of enrichment.
gappedPeak
ENCODE BED12+3 format for called peaks with internal gapped (block) structure.
GFF3
Generic Feature Format version 3: hierarchical, attribute-rich feature annotations.
GTF
Gene Transfer Format: a GFF2-derived format for gene model annotations.
VCF
Variant Call Format: sequence variants relative to a reference.
BAM
Binary Alignment Map: compressed binary form of SAM aligned reads.