drop_snps: Drop set a SNPs

In FellouMada/rSNPdata: R package for Analysis of P. falciparum whole genome SNPs data

Drop set a SNPs

Description

remove a set of SNPs from the SNPdata object

Usage

snpdata = drop_snps(snpdata, snp.to.be.dropped=NA, chrom="Pf3D7_05_v3", start=100, end=500)

Arguments

snpdata	a SNPdata object
snp.to.be.dropped	a data frame with 2 columns "Chrom" and "Pos"
chrom	the chromosome from which loci should be dropped
start	the starting position of the region to be discarded
end	the end position of the region to be discarded

Details

when snp.to.be.dropped is not set to NA (i.e. the genomic coordinates of snps to be removed are in a data frame), then the rest of the arguments can be ignored or set to NA (chrom=NA, start=NA, end=NA)

Value

a SNPdata object where the specified SNPs have been removed

FellouMada/rSNPdata documentation built on June 12, 2022, 7:29 p.m.