breeding_values: Estimate breeding values - Adapted function from QTLpoly

In viewpoly: A Shiny App to Visualize Genetic Maps and QTL Analysis in Polyploid Species

Estimate breeding values - Adapted function from QTLpoly

Description

Estimate breeding values - Adapted function from QTLpoly

Usage

breeding_values(qtl_info, probs, selected_mks, blups, beta.hat, pos)

Arguments

qtl_info	data.frame with: LG - linkage group ID; Pos - position in linkage map (cM); Pheno - phenotype ID; Pos_lower - lower position of confidence interval; Pos_upper - upper position of the confidence interval; Pval - QTL p-value; h2 - herdability
probs	data.frame with first column (named 'ind') as individuals ID and next columns named with markers ID and containing the genotype probability at each marker
selected_mks	data.frame with: LG - linkage group ID; mk - marker ID; pos - position in linkage map (cM)
blups	data.frame with: haplo - haplotype ID; pheno - phenotype ID; qtl - QTL ID; u.hat - QTL estimated BLUPs
beta.hat	data.frame with: pheno - phenotype ID; beta.hat - estimated beta
pos	selected QTL position (cM)

Value

data.frame containing breeding values

viewpoly documentation built on Nov. 2, 2022, 1:05 a.m.