map_summary

Gets summary information from map.
Adapted from MAPpoly

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

map_summary function

<dl><dt>left.lim</dt>
<dd>covered window in the linkage map start position</dd>
<dt>right.lim</dt>
<dd>covered window in the linkage map end position</dd>
<dt>ch</dt>
<dd>linkage group ID</dd>
<dt>maps</dt>
<dd>list containing a vector for each linkage group markers with marker positions (named with marker names)</dd>
<dt>d.p1</dt>
<dd>list containing a data.frame for each group with parent 1 dosages. The data.frame contain the columns: 
1) character vector with chromosomes ID; 
2) Character vector with markers ID; 3) Character vector with parent ID; 
4) numerical vector with dosage</dd>
<dt>d.p2</dt>
<dd>list containing a data.frame for each group with parent 2 dosages. See d.p1 parameter description</dd></dl>

Arguments

Gets summary information from map.
Adapted from MAPpoly — map_summary

<dl>

<dt>left.lim</dt>
<dd>covered window in the linkage map start position</dd>


<dt>right.lim</dt>
<dd>covered window in the linkage map end position</dd>


<dt>ch</dt>
<dd>linkage group ID</dd>


<dt>maps</dt>
<dd>list containing a vector for each linkage group markers with marker positions (named with marker names)</dd>


<dt>d.p1</dt>
<dd>list containing a data.frame for each group with parent 1 dosages. The data.frame contain the columns: 
1) character vector with chromosomes ID; 
2) Character vector with markers ID; 3) Character vector with parent ID; 
4) numerical vector with dosage</dd>


<dt>d.p2</dt>
<dd>list containing a data.frame for each group with parent 2 dosages. See d.p1 parameter description</dd>

</dl>

Gets summary information from map.
Adapted from MAPpoly

map_summary: Gets summary information from map. Adapted from MAPpoly

Description

Usage

Value

Arguments