exclMarkers

Helper function for selecting markers to be excluded from GWAS scan.
Markers are excluded if they are identical to any of the snpCovariates
(including the snpCovariates themselves).

internal

Fast multi-trait and multi-trail Genome Wide Association Studies
(GWAS) following the method described in Zhou and Stephens. (2014),
<doi:10.1038/nmeth.2848>. One of a series of statistical genetic packages
for streamlining the analysis of typical plant breeding experiments
developed by Biometris.

Bart-Jan van Rossum

statgenQTLxT

Multi-Trait and Multi-Trial Genome Wide Association Studies

Willem Kruijer

Fred van Eeuwijk

Martin P Boer

Daniela Bustos-Korts

Emilie J Millet

Joao Paulo

Maikel Verouden

Ron Wehrens

Choazhi Zheng

exclMarkers function

<dl><dt>snpCov</dt>
<dd>A character vector of snpCovariates.</dd>
<dt>markers</dt>
<dd>A matrix with marker information.</dd>
<dt>allFreq</dt>
<dd>A numerical vector of allele frequencies of the markers in
<code>markers</code>. This could be computed from markers as well but it is
needed in the general algorithm so to not redo things unnecessarily it is
not redone here.</dd></dl>

Arguments

Select markers to be excluded from GWAS scan. — exclMarkers

<dl>

<dt>snpCov</dt>
<dd>A character vector of snpCovariates.</dd>


<dt>markers</dt>
<dd>A matrix with marker information.</dd>


<dt>allFreq</dt>
<dd>A numerical vector of allele frequencies of the markers in
<code>markers</code>. This could be computed from markers as well but it is
needed in the general algorithm so to not redo things unnecessarily it is
not redone here.</dd>

</dl>

Select markers to be excluded from GWAS scan.

exclMarkers: Select markers to be excluded from GWAS scan.

Description

Usage

Value

Arguments