findQTL: Find QTL

In egking/DSPRqtl: Analysis of DSPR phenotypes in R

Description

findQTL finds peak LOD scores that exceed the given threshold (identifies signficant QTL).

Usage

findQTL(qtldat, threshold, design)

Arguments

qtldat	data.frame of chromosome, position, and LOD scores (column names chr,Ppos,Gpos,LOD). List element LODscores from DSPRscan.
threshold	numeric vector of length one consisting of the signficance threshold. Default is 6.8 for inbred designs and 10.1 for the ABcross. Use DSPRperm to get a threshold specific to a given dataset.
design	a character string. One of either 'inbredA', 'inbredB', or 'ABcross' corresponding to the pA and pB set of inbred RILs or the pA-pB cross design.

Value

A data.frame consisting of the chromosome, physical position (bp), genetic position (cM) and LOD score for each significant peak.

Author(s)

Elizabeth King ([e-mail])

egking/DSPRqtl documentation built on May 16, 2019, 12:14 a.m.