findSupport

Given QTL output, this function returns the LOD - x support for a specified linkage group, taking the 
maximum LOD position as the desired QTL peak.

Quantitative trait loci (QTL) analysis and exploration of meiotic patterns in
autopolyploid bi-parental F1 populations.
For all ploidy levels, identity-by-descent (IBD) probabilities can be estimated.
Significance thresholds, exploring QTL allele effects and visualising results are provided.
For more background and to reference the package see <doi:10.1093/bioinformatics/btab574>.

Peter Bourke

polyqtlR

QTL Analysis in Autopolyploid Bi-Parental F1 Populations

Christine Hackett

Chris Maliepaard

Geert van Geest

Roeland Voorrips

Johan Willemsen

findSupport function

<dl><dt>LOD_data</dt>
<dd>Output of <code>QTLscan</code> function.</dd>
<dt>linkage_group</dt>
<dd>Numeric identifier of the linkage group being tested, based on the order of <code>IBD_list</code>.
Only a single linkage group is allowed.</dd>
<dt>LOD_support</dt>
<dd>The level of support around a QTL peak, by default 2 (giving a LOD - 2 support interval, the 
range of positions with a LOD score within 2 LOD units of the maximum LOD on that linkage group).</dd></dl>

Arguments

Function to find a LOD - x support interval around a QTL position — findSupport

<dl>

<dt>LOD_data</dt>
<dd>Output of <code>QTLscan</code> function.</dd>


<dt>linkage_group</dt>
<dd>Numeric identifier of the linkage group being tested, based on the order of <code>IBD_list</code>.
Only a single linkage group is allowed.</dd>


<dt>LOD_support</dt>
<dd>The level of support around a QTL peak, by default 2 (giving a LOD - 2 support interval, the 
range of positions with a LOD score within 2 LOD units of the maximum LOD on that linkage group).</dd>

</dl>

findSupport: Function to find a LOD - x support interval around a QTL position

Description

Usage

Arguments

Examples