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Query vcf file, extracting by chromosome and position

Source: R/query.r
query_chrompos_file.Rd

Query vcf file, extracting by chromosome and position

Usage

query_chrompos_file(chrompos, vcffile, id = NULL, build = "GRCh37")

Arguments

chrompos

Either vector of chromosome and position ranges e.g. "1:1000" or "1:1000-2000", or data frame with columns chrom, start, end.

vcffile

Path to .vcf.gz GWAS summary data file

id

If multiple GWAS datasets in the vcf file, the name (sample ID) from which to perform the filter

build

Default="GRCh37" Build of vcffile

Value

VCF object