Last data update: 2014.03.03
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R: Declare class Reads in VCF using readVCFAsVRanges
VCFData-class | R Documentation |
Declare class
Reads in VCF using readVCFAsVRanges
Description
Declare class
Reads in VCF using readVCFAsVRanges
Arguments
mydir |
Directory of vcf file
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myfile |
Filename of vcf file
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vr.homref |
All SNPs from VCF with INDELs, MULTIs (seperately removed for variant and non variant), weird chromosomes removed
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genoString |
A character vector of all genotype fields present (looks for AD, GQ, GT, DP)
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infoString |
A character vector looking for "END" tag indicating file is a gVCF
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genome |
Declare if the genome is GRCh37 or GRCh38
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n.dup |
Counts the number of MULTIs removed
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chunked |
Whether data was read in using ReadVCFDataChunk which means hom refs not in the admixture file were dropped
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Value
Object of class VCFData
Results
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