filterGS

showModule

Filter a data frame or vector by genes belonging to a gene set

Methods and feature set definitions for feature or gene set
enrichment analysis in transcriptional and metabolic profiling data.
Package includes tests for enrichment based on ranked lists of features,
functions for visualisation and multivariate functional analysis. See Zyla et al (2019)
<doi:10.1093/bioinformatics/btz447>.

January Weiner

tmod

Feature Set Enrichment Analysis for Metabolomics and
Transcriptomics

filterGS function

<dl><dt>genes</dt>
<dd>a character vector with gene IDs</dd>
<dt>gs</dt>
<dd>a character vector corresponding to the IDs of the gene sets to be shown</dd>
<dt>mset</dt>
<dd>Module set to use; see "tmodUtest" for details</dd>
<dt>x</dt>
<dd>a data frame or a vector</dd>
<dt>extra</dt>
<dd>no longer used.</dd></dl>

Arguments

Filter by genes belonging to a gene set from a data frame — filterGS

<dl>

<dt>genes</dt>
<dd>a character vector with gene IDs</dd>


<dt>gs</dt>
<dd>a character vector corresponding to the IDs of the gene sets to be shown</dd>


<dt>mset</dt>
<dd>Module set to use; see "tmodUtest" for details</dd>


<dt>x</dt>
<dd>a data frame or a vector</dd>


<dt>extra</dt>
<dd>no longer used.</dd>

</dl>

filterGS: Filter by genes belonging to a gene set from a data frame

Description

Usage

Value

Arguments

Details

Examples