wrap_get_density: A function to get the number of markers along consecutive...

Usage Arguments Value Author(s) References

Usage

1
wrap_get_density(inputfile,binsize,cut=T,chr.match,cutoff=10)

Arguments

inputfile

A txt input file for TIGER pipeline, usually strat with chr and pos followed by Alleles from one line, allele call,and alleles from another line,and corresponding allele call

binsize

The size of the genomic bins

cut

If the bins with too few markers should be discarded

chr.match

a file matching Contig names to chromsome,

cutoff

if the number of markers in a bin is smaller than cutoff, this bin would be discarded

Value

return a vector with number of markers for this input file.

Author(s)

Yanjun Zan, Thibaut Payen

References

Yanjun Zan, Thibaut Payen, Mette Lillie Leif Andersson, Paul B. Siegel and Örjan Carlborg;Whole-genome QTL mapping in experimental pedigrees from outbred founders utilizing low coverage individual based sequencing 2018


yanjunzan/TD documentation built on May 18, 2019, 3:40 a.m.