readBGENToMatrixByGene {seqminer} | R Documentation |
Read a gene from BGEN file and return a genotype matrix
Description
Read a gene from BGEN file and return a genotype matrix
Usage
readBGENToMatrixByGene(fileName, geneFile, geneName)
Arguments
fileName |
character, represents an input BGEN file (Bgzipped, with Tabix index) |
geneFile |
character, a text file listing all genes in refFlat format |
geneName |
character vector, which gene(s) to be extracted |
Value
genotype matrix
See Also
http://zhanxw.com/seqminer/ for online manual and examples
Examples
fileName = system.file("bgen/all.anno.filtered.extract.bgen", package = "seqminer")
geneFile = system.file("vcf/refFlat_hg19_6col.txt.gz", package = "seqminer")
cfh <- readBGENToMatrixByGene(fileName, geneFile, "CFH")
[Package seqminer version 9.4 Index]