extractModuleGO

Turns the list of lists from the moduleGO function into a more comprehensible data frame. Note that if a GO term enrichment does not exist for that module, it is set as NA.

Performs differential correlation analysis on input
matrices, with multiple conditions specified by a design matrix. Contains
functions to filter, process, save, visualize, and interpret differential
correlations of identifier-pairs across the entire identifier space, or with
respect to a particular set of identifiers (e.g., one). Also contains several
functions to perform differential correlation analysis on clusters (i.e., modules)
or genes. Finally, it contains functions to generate empirical p-values for the
hypothesis tests and adjust them for multiple comparisons. Although the package
was built with gene expression data in mind, it is applicable to other types of
genomics data as well, in addition to being potentially applicable to data from
other fields entirely. It is described more fully in the manuscript
introducing it, freely available at <doi:10.1186/s12918-016-0349-1>.

Andrew McKenzie

DGCA

Differential Gene Correlation Analysis

extractModuleGO function

<dl><dt>moduleGO_list</dt>
<dd>The list of list of data frames for each module to be turned into a data frame.</dd>
<dt>labels</dt>
<dd>Optional, a list of module names. Optional; if not inputted, these will be extracted from the list of module GO enrichments.</dd></dl>

Arguments

Extract results from the module GO analysis — extractModuleGO

<dl>

<dt>moduleGO_list</dt>
<dd>The list of list of data frames for each module to be turned into a data frame.</dd>


<dt>labels</dt>
<dd>Optional, a list of module names. Optional; if not inputted, these will be extracted from the list of module GO enrichments.</dd>

</dl>

extractModuleGO: Extract results from the module GO analysis

Description

Usage

Value

Arguments