meso

<code>meso</code> is a list containing gene expression data from Mesothelioma tumors
generated by The Cancer Genome Atlas (TCGA) and obtained using the
LinkedOmics portal. The first element in the list, named "gene_expression",
contains 32 samples (rows) with 150 genes (columns). The second element,
named "groups", is a vector of length 32 indicating which group (stage ii
or stage iv) each gene expression sample belongs to. See the "Package data"
vignette for details.

datasets

Integrates pathway information into the differential network analysis of two gene expression datasets as described in Grimes, Potter, and Datta (2019) <doi:10.1038/s41598-019-41918-3>. Provides summary functions to break down the results at the pathway, gene, or individual connection level. The differential networks for each pathway of interest can be plotted, and the visualization will highlight any differentially expressed genes and all of the gene-gene associations that are significantly differentially connected.

Tyler Grimes

dnapath

Differential Network Analysis using Gene Pathways

Somnath Datta

meso function

A list containing two items:<dl>
<dt>$gene_expression</dt>
<dd>A 32 by 150 matrix of gene expression values</dd><dt>$groups</dt>
<dd>A vector of length 32 indicating which group (stageii or
stageiv) each of the rows in the gene expression data belong to.</dd>
</dl>

Format

Gene expression dataset for two groups — meso

A list containing two items:<dl>
<dt>$gene_expression</dt>
<dd>A 32 by 150 matrix of gene expression values</dd>

<dt>$groups</dt>
<dd>A vector of length 32 indicating which group (stageii or
stageiv) each of the rows in the gene expression data belong to.</dd>


</dl>

meso: Gene expression dataset for two groups

Description

Usage

Arguments

Format