summarize_genes_for_pathway

A 'dnapath' object of a single pathway.

Threshold for p-values of gene DC scores, used to
subset the x. If NULL (or 1), x for all genes are shown.

alpha_gene

If TRUE, monotonized p-values are used.

monotonized

Summarize differential connectivity of genes in a pathway

internal

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.

summarize_genes_for_pathway: Summarize differential connectivity of genes in a pathway

Description

Usage

Arguments

Value