g_red


 igraph graph object used in unit tests.
 Obtained by restricting the graph <g2> to the graph induced by randomly selecting 1500 genes.
</g2>

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

g_red function

Format

STRING v9.1 Mouse filtered for confidence scores >= 0.9; radnomly reduced to 1500 genes and all interactions between them

Source


 igraph graph object used in unit tests.
 Obtained by restricting the graph <g2> to the graph induced by randomly selecting 1500 genes.


g_red: igraph graph object used in unit tests

Description

Usage

Arguments

Format

Source