scan.qtls: Scan qtls

Description Usage Arguments Details Value Author(s) See Also Examples

Description

Scanning population data for qtls for use in cross.saturate function.

Usage

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  scan.qtls(population,map=c("genetic","physical"), env, epistasis = c("scan","ignore"),
  step=0.1,verbose=FALSE)

Arguments

population

An object of class population. See create.population for details.

map

Which map (from ones stored in population$maps) should be used fo assigning chromosomes on the created map

env

Vector of environmental conditions - for each of the individuals specifies a condition. Ignored if missing.

epistasis

Should the two markers epistasis be scanned for. It is a heavy procedure!

step

Maximum distance (in cM) between positions at which the genotype probabilities are calculated, though for step = 0, probabilities are calculated only at the marker locations. See calc.genoprob for more information .

verbose

Be verbose.

Details

This function takes care about qtl scan that is used by cross.saturate function. It was made separated function, since process itself takes a long time and before running cross.saturate function one should run markerPlacementPlot to assess the optimal threshold.

Value

An object of class population. See create.population for details.

Author(s)

Konrad Zych k.zych@rug.nl, Danny Arends Danny.Arends@gmail.com Maintainer: Konrad Zych k.zych@rug.nl

See Also

Examples

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KonradZych/phenotypes2genotypes documentation built on May 30, 2019, 2:45 p.m.