pvals_red


  Gene p-value list used in unit tests
  Contains p-values obtained on the CCM2 data for a radnom subselection of 1500 genes. 
  To be used in conjunction with the network contained in <g_red>.
</g_red>

datasets

Implements the method described in "Network-based analysis of omics data: The LEAN method" [Gwinner Boulday (2016) <DOI:10.1093/bioinformatics/btw676>]
Given a protein interaction network and a list of p-values describing a measure of interest (as e.g. differential gene expression) this method
computes an enrichment p-value for the protein neighborhood of each gene and compares it to a background distribution of randomly drawn p-values.
The resulting scores are corrected for multiple testing and significant hits are returned in tabular format.

Frederik Gwinner

LEANR

Finds "Local Subnetworks" Within an Interaction Network which
Show Enrichment for Differentially Expressed Genes

pvals_red function

The format is:
 Named num [1:1500] 0.5091 0.4833 0.0454 0.0814 0.0324 ...
 - attr(*, "names")= chr [1:1500] "10090.ENSMUSP00000079341" "10090.ENSMUSP00000106951" "10090.ENSMUSP00000045284" "10090.ENSMUSP00000077744" ...

Format


  Gene p-value list used in unit tests
  Contains p-values obtained on the CCM2 data for a radnom subselection of 1500 genes. 
  To be used in conjunction with the network contained in <g_red>.


pvals_red: Gene p-value list used in unit tests

Description

Usage

Arguments

Format