find_indelneighbor_idx: find_indelneighbor_idx

In poolfstat: Computing f-Statistics and Building Admixture Graphs Based on Allele Count or Pool-Seq Read Count Data

find_indelneighbor_idx

Description

Search for the closest indels of the markers

Usage

.find_indelneighbor_idx(contig, position, indels_idx, min_dist, indels_size)

Arguments

contig	a character string vector corresponding to the CHR field value of the vcf for the markers
position	an integer vector corresponding to the POSITION value for the markers
indels_idx	vector of (0-indexed) indices of indels
min_dist	same as min.dist.from.indels option in vcf2pooldata
indels_size	size of the indels (associated to indels_idx)

Details

Identify if the SNPs are close to an indel

Value

Return a vector consisting of 1 (if the marker is close to an indel) or 0 (if not)

Examples

.find_indelneighbor_idx(c("chr1","chr1","chr1"),c(1000,1004,1020),1,5,2)

poolfstat documentation built on Sept. 8, 2023, 5:49 p.m.