plotROHSegmentsChr: Creation of plot using ROH file

In genostats/Fantasio: Genetic Data Analyses in Presence of Inbreeding

Creation of plot using ROH file

Description

This function is used to plot HBDsegments for a chromosome using an ROH file

Usage

plotROHSegmentsChr(
  ROH,
  submaps,
  unit = "cM",
  chr,
  outfile,
  listid,
  regions,
  build
)

Arguments

ROH	a data frame
submaps	a atlas object
unit	the unit used to plot, two options are allowed "Bases", "cM" (default is "CM")
chr	the chromosome number from which to plot ROH
outfile	the name of the plot
listid	a vector containing the family id follow by the individual id
regions	a matrix containing the value to ve highlighted in the plot
build	the value of the build to use to plot chromosome in the plot value accepted are 35, 36, 37, 38 (default is 37)

Details

Use this function when you want to use an ROH file to plot your HBDsegments for a specific chromosome.

Two unit are accepted : "Bases" or "cM".

If you use the regions options make sure to pass a matrix containing one line per region to be highlighted with in each line :

-the chromosome number

-start

-end

Value

This function returns a plot of the HBDsegments for a specific chromosome

genostats/Fantasio documentation built on Feb. 2, 2023, 5:28 p.m.