EDAM - Bioscientific data analysis ontology - VCF - Classes

Last uploaded: February 26, 2021

Preferred Name	VCF
Synonyms
Definitions	Variant Call Format (VCF) is tabular format for storing genomic sequence variations. 1000 Genomes Project has its own specification for encoding structural variations in VCF (https://www.internationalgenome.org/wiki/Analysis/Variant%20Call%20Format/VCF%20(Variant%20Call%20Format)%20version%204.0/encoding-structural-variants). This is based on VCF version 4.0 and not directly compatible with VCF version 4.3.
ID	http://edamontology.org/format_3016
comment	1000 Genomes Project has its own specification for encoding structural variations in VCF (https://www.internationalgenome.org/wiki/Analysis/Variant%20Call%20Format/VCF%20(Variant%20Call%20Format)%20version%204.0/encoding-structural-variants). This is based on VCF version 4.0 and not directly compatible with VCF version 4.3.
Created in	beta12orEarlier
Documentation	https://samtools.github.io/hts-specs/VCFv4.3.pdf
File extension	vcf vcf.gz
hasDefinition	Variant Call Format (VCF) is tabular format for storing genomic sequence variations.
inSubset	http://edamontology.org/bio http://edamontology.org/formats
label	VCF
prefixIRI	format_3016
prefLabel	VCF
seeAlso	https://en.wikipedia.org/wiki/Variant_Call_Format
subClassOf	http://edamontology.org/format_2921 http://edamontology.org/format_2330

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Mapping To	Ontology	Source
http://edamontology.org/format_3016	ITO	SAME_URI
http://edamontology.org/format_3016	ERO	SAME_URI
http://identifiers.org/hgnc/12664	HGNC-NR	LOOM
http://edamontology.org/format_3016	ITO	LOOM
http://edamontology.org/format_3016	ERO	LOOM