annotate_lods: Annotate LOD peaks with variance explained, effect size, and...

In AndersenLab/linkagemapping2: Functions for the Mapping of Andersen Lab RIAILs and RILs using qtl2

Description

Annotate LOD peaks with variance explained, effect size, and confidence interval bounds

Usage

annotate_lods(lods, cross, annotate_all = FALSE, bayes = FALSE)

Arguments

lods	A data frame output by the mapping functions to be converted to a scanone object
cross	The cross object used for the original mapping
annotate_all	Boolean whether or not to annotate all markers with variance explained and effect size. If FALSE (default), only peak lods will be annotated.
bayes	Boolean whether or not to calculate confidence intervals based on Bayes statistics (LOD drop 1.5 used to find CI by default)

Value

The annotated lods data frame with information added for peak markers of each iteration

AndersenLab/linkagemapping2 documentation built on May 3, 2019, 8:32 p.m.