pullMap: Creates map object

In grafab/pergola: Toolbox for Polyploid Genetic Data

Description

Creates map object from matrix of pairwise recombination frequencies.

Usage

pullMap(rf, split, fun = "haldane", corr = 1)

Arguments

rf	Matrix of pairwise recombination frequencies.
split	Split object.
fun	Function to space the markers on the map. Default is "haldane". Alternatives are "kosambi", "carter" and "none.
corr	Corrector, if recombinations are overestimated. Allows to multiply all spaces by a fixed factor.

Value

Ordered vector of marker locations. Each marker has a name attribute.

Examples

data(simTetra)
simTetrageno <- basesToGenotypes(simTetra, 4)
rfMat <- calcRec(simTetrageno, 4)
split <- splitChr(rfMat, nchr = 7)
split <- sortLeafs(rfMat, split)
pullMap(rfMat, split = split)   

grafab/pergola documentation built on May 17, 2019, 8:18 a.m.