FindSignificantEdgesForHop: Find the subnetwork of significant edges n / 2 hops away from...

In netZoo/netZooR: Unified methods for the inference and analysis of gene regulatory networks

Find the subnetwork of significant edges n / 2 hops away from each gene.

Description

Find the subnetwork of significant edges n / 2 hops away from each gene.

Usage

FindSignificantEdgesForHop(
  geneSet,
  combinedNetwork,
  hopConstraint,
  pValues,
  verbose = FALSE,
  topX = NULL
)

Arguments

geneSet	A character vector of genes comprising the targets of interest.
combinedNetwork	A concatenation of n PANDA-like networks with the following format: tf,gene,score_net1, score_net2, ... , score_netn
hopConstraint	The maximum number of hops to be considered for a gene.
pValues	The p-values for all edges.
verbose	Whether or not to print detailed information about the run.
topX	Select the X lowest significant p-values for each gene. NULL by default.

Value

A bipartite subnetwork in the same format as the original networks.

netZoo/netZooR documentation built on July 28, 2024, 6 p.m.