arbitrary.cut: A function transform the averaged score in to genotypes based...

In yanjunzan/GBSA: Genotype imputation and QTL mapping with ultra low coverage sequencing in pedigree

Usage

arbitrary.cut(geno,  upper.cut,  lower.cut)

Arguments

geno	the genotype matrix returned from creatExact function
upper.cut	threshold for calling homozygous genotype, 0.8 is a good strat to try
lower.cut	threshold for calling homozygous alternative genotype, 0.2 is a good strat to try

Value

return a data.frame with each bin transformed to "A" for homozygous and "B" for alternative genotype, "H" for heterozygous

Author(s)

Yanjun Zan, Thibaut Payen

References

Yanjun Zan, Thibaut Payen, Leif Andersson, Paul B. Siegel and <c3><96>rjan Carlborg;Whole-genome QTL mapping in experimental pedigrees from outbred founders utilizing low coverage individual based sequencing 2018

Examples

See the package tutorial

yanjunzan/GBSA documentation built on May 14, 2019, 4:05 a.m.