VcfAllele sb-phenopackets

{S}[B] Status [i]
implemented
Provenance
Used by
Contributors
Source (v1.0.0)

Attributes

Type: object
Description: A single VCF allele. For structural variation the INFO field should contain the relevant information e.g. END=43500;SVTYPE=DUP;CHR2=1;SVLEN=29000; See https://samtools.github.io/hts-specs/VCFv4.3.pdf

Properties

Property Type
alt string
chr string
genomeAssembly string
id string
info string
pos integer
ref string
vcfVersion string

alt

add description

alt Value Example
"G"

chr

add description

chr Value Example
"10"

genomeAssembly

Genome assembly the allele was called against. We recommend using the Genome Reference Consortium nomenclature

genomeAssembly Value Examples
"GRCh37"
"GRCh38"

id

add description

id Value Example
"add example"

info

add description

info Value Example
"add example"

pos

add description

pos Value Example
123256215

ref

add description

ref Value Example
"T"

vcfVersion

The value of the VCF spec fileformat field

vcfVersion Value Examples
"VCFv4.1"
"VCFv4.2"

VcfAllele Value Example

{
   "alt" : "G",
   "chr" : "10",
   "genomeAssembly" : "GRCh37",
   "pos" : "123256215",
   "ref" : "T",
   "vcfVersion" : "VCFv4.1"
}