FindRIAILsforNILs: Find RIAILs for generating NILs to isolate a genomic region

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

Description

Find RIAILs for generating NILs to isolate a genomic region

Usage

FindRIAILsforNILs(CI.L, CI.R, chromosome)

Arguments

CI.L	The left marker of the interval, e.g. "UCE1-526"
CI.R	The right marker of the interval, e.g. "CE1-108"
chromosome	The chromosome of the interval as a quoted roman numeral

Value

Outputs a list of four elements. CompleteInterval1 - dataframe of strains with a continous genotype block across user input interval strains also have a breakpoint in the surrounding region used to generate plot "complete". BreakInterval - dataframe of strains with breaks in the interval and outside the interval used to generate plot "complete". Breaks - ggplot object of all RIAILs identified to have break points in and around the interval Complete - ggplot object of all RIAILs identified to have a continous genotype stretch across the interval

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