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seqminer (version 0.1)

readVCFToMatrixByGene: Read a gene from VCF file and return a genotypes matrix

Description

Read a gene from VCF file and return a genotypes matrix

Usage

readVCFToMatrixByGene(fileName, geneFile, geneName,
    annoType)

Arguments

fileName
an input VCF file (Bgzipped, with Tabix index)
geneFile
a text file listing all genes in refFlat format
geneName
which gene(s) to be extracted
annoType
which annotation you would like to extract

Value

  • genotype matrix