plotCollapsedVarInf


	The object in which all results are stored. See <code><a rd-options="" href="/link/read.population?package=cape&version=2.0.2" data-mini-rdoc="cape::read.population">read.population</a></code>.


data.obj


		A logical value. If FALSE, the markers are labeled as linkage blocks ("block1", "block2" and so forth). If TRUE, the block labels are expanded to show allmarker names included in each block.
	

expand.labels


		A logical value. If TRUE all markers are plotted. If FALSE only markers tested in the pair scan are plotted.
	

all.markers


		A string indicating a scaling function by which the effects should be scaled. This is useful in increasing contrast between effects with large variance.
	

scale.effects


This function plots the final network as does <code><a rd-options="" href="/link/plotVariantInfluences?package=cape&version=2.0.2" data-mini-rdoc="cape::plotVariantInfluences">plotVariantInfluences</a></code>, but it plots the network condensed by linkage blocks as performed by <code><a rd-options="" href="/link/get.network?package=cape&version=2.0.2" data-mini-rdoc="cape::get.network">get.network</a></code>. This function can only be run after running <code><a rd-options="" href="/link/get.network?package=cape&version=2.0.2" data-mini-rdoc="cape::get.network">get.network</a></code>


hplot

Combines complementary information across multiple related
phenotypes to infer directed epistatic interactions between genetic markers.
This analysis can be applied to a variety of engineered and natural populations.

Anna L Tyler

cape

Combined Analysis of Pleiotropy and Epistasis

plotCollapsedVarInf function


	The object in which all results are stored. See <code><a rd-options='' href='read.population'>read.population</a></code>.



This function plots the final network as does <code><a rd-options='' href='plotVariantInfluences'>plotVariantInfluences</a></code>, but it plots the network condensed by linkage blocks as performed by <code><a rd-options='' href='get.network'>get.network</a></code>. This function can only be run after running <code><a rd-options='' href='get.network'>get.network</a></code>


plotCollapsedVarInf: Plot variant-to-variant influences

Description

Usage

Arguments

See Also