tmodLEASummary

Summary stats of a leading edge analysis

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

tmodLEASummary function

<dl><dt>lea</dt>
<dd>result of `tmodLEA`</dd>
<dt>genes</dt>
<dd>if TRUE, the gene identifiers of the leading edge (joined by commas) will be appended.</dd>
<dt>labels</dt>
<dd>labels to add to the result; if NULL, the labels will be
taken from `mset`</dd>
<dt>mset</dt>
<dd>Which module set to use. Either a character vector ("LI", "DC" or "all", default: all) or an object of class tmod (see "Custom module definitions" below)</dd></dl>

Arguments

Summary stats of a leading edge analysis — tmodLEASummary

<dl>

<dt>lea</dt>
<dd>result of `tmodLEA`</dd>


<dt>genes</dt>
<dd>if TRUE, the gene identifiers of the leading edge (joined by commas) will be appended.</dd>


<dt>labels</dt>
<dd>labels to add to the result; if NULL, the labels will be
taken from `mset`</dd>


<dt>mset</dt>
<dd>Which module set to use. Either a character vector ("LI", "DC" or "all", default: all) or an object of class tmod (see "Custom module definitions" below)</dd>

</dl>

tmodLEASummary: Summary stats of a leading edge analysis

Description

Usage

Value

Arguments