makeSubmapByHotspots: Creation of a submaps

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

Creation of a submaps

Description

This function creates a submaps using the list segments created by using the hotspots in the genome

Usage

makeSubmapByHotspots(bedmatrix, segmentsList, epsilon = 0.001, snpIndices)

Arguments

bedmatrix	a bed.matrix object
segmentsList	a list of segment for each chromosomes
epsilon	genotype error rate (default is 0.001)
snpIndices	(optional) You have the possibility to pass your own list of markers

Details

If snpIndices is given, the function creates a submap corresponding to the given SNPs.

Otherwise, this function iterates over the list of segments, then for each segments it picks randomly one marker.

This function is used internally in the package by the function makeAtlasByHotspots

Value

return an HostspotsMatrix object with some of his slots filled.

See Also

makeSubmapsByHotspots

Examples

 
#Please refer to vignette 

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