plot_effects

internal

Provides a graphical user interface to integrate, visualize and explore results
from linkage and quantitative trait loci analysis, together with genomic information for autopolyploid
species. The app is meant for interactive use and allows users to optionally upload different sources
of information, including  gene annotation and alignment files, enabling the exploitation and search for
candidate genes in a genome browser. In its current version, 'VIEWpoly' supports inputs from 'MAPpoly',
'polymapR', 'diaQTL', 'QTLpoly', 'polyqtlR', 'GWASpoly', and 'HIDECAN' packages.

Cristiane Taniguti

viewpoly

A Shiny App to Visualize Genetic Maps and QTL Analysis in
Polyploid Species

Gabriel de Siqueira Gesteira

Jeekin Lau

Olivia Angelin-Bonnet

Susan Thomson

Guilherme da Silva Pereira

David Byrne

Zhao-Bang Zeng

Oscar Riera-Lizarazu

Marcelo Mollinari

plot_effects function

<dl><dt>data_effects.obj</dt>
<dd>output of function <code>data_effects</code></dd>
<dt>software</dt>
<dd>character defining which software was used for QTL analysis. Currently support for: QTLpoly, diaQTL and polyqtlR.</dd>
<dt>design</dt>
<dd>character defining the graphic design. Options: `bar` - barplot of the effects; 
`circle` - circular plot of the effects (useful to compare effects of different traits); 
`digenic` - heatmap plotting sum of additive effects (bottom diagonal) and digenic effects (top diagonal) when present</dd></dl>

Arguments

Plot effects data — plot_effects

<dl>

<dt>data_effects.obj</dt>
<dd>output of function <code>data_effects</code></dd>


<dt>software</dt>
<dd>character defining which software was used for QTL analysis. Currently support for: QTLpoly, diaQTL and polyqtlR.</dd>


<dt>design</dt>
<dd>character defining the graphic design. Options: `bar` - barplot of the effects; 
`circle` - circular plot of the effects (useful to compare effects of different traits); 
`digenic` - heatmap plotting sum of additive effects (bottom diagonal) and digenic effects (top diagonal) when present</dd>

</dl>

Plot effects data

plot_effects: Plot effects data

Description

Usage

Arguments