vis_pathway_cross_omics

Visualize cross-omics of one pathway among pan-cancers

Provides functions and a Shiny application for downloading,
analyzing and visualizing datasets from UCSC Xena
(<http://xena.ucsc.edu/>), which is a collection of UCSC-hosted public
databases such as TCGA, ICGC, TARGET, GTEx, CCLE, and others.

Shixiang Wang

UCSCXenaShiny

Interactive Analysis of UCSC Xena Data

Shensuo Li

Yi Xiong

Longfei Zhao

Kai Gu

Yin Li

Fei Zhao

vis_pathway_cross_omics function

<dl><dt>pw</dt>
<dd>pathway name</dd>
<dt>tumor_projects</dt>
<dd>Select specific TCGA projects. Default NULL, indicating all TCGA projects.</dd>
<dt>tumor_samples</dt>
<dd>Select specific tumor samples. Default NULL, indicating all tumor samples.</dd>
<dt>pval_mrna</dt>
<dd>The P value thresholds</dd>
<dt>return_list</dt>
<dd>TRUE returns a list including plot object and data. FALSE just returns plot.</dd></dl>

Arguments

Visualize cross-omics of one pathway among pan-cancers — vis_pathway_cross_omics

<dl>

<dt>pw</dt>
<dd>pathway name</dd>


<dt>tumor_projects</dt>
<dd>Select specific TCGA projects. Default NULL, indicating all TCGA projects.</dd>


<dt>tumor_samples</dt>
<dd>Select specific tumor samples. Default NULL, indicating all tumor samples.</dd>


<dt>pval_mrna</dt>
<dd>The P value thresholds</dd>


<dt>return_list</dt>
<dd>TRUE returns a list including plot object and data. FALSE just returns plot.</dd>

</dl>

vis_pathway_cross_omics: Visualize cross-omics of one pathway among pan-cancers

Description

Usage

Value

Arguments