regulatorAnalysis.directed_weighted: Function to Identify Network Regulators from Directed...

In Sage-Bionetworks/metanetwork: Network meta analysis

Function to Identify Network Regulators from Directed Weighted Networks

Description

Identifies network regulators from directed network weights.

Usage

regulatorAnalysis.directed_weighted(
  adj,
  G,
  h = 3,
  n = 100,
  correction.method = "bonferroni",
  pval.cutoff = 0.01
)

Arguments

adj	Required. An n x n weighted upper triangular adjacency in the matrix class format.
G	Required. A named vector of node scores.
h	Optional. Neighborhood search distance (h nodes away from current node) (Default = 3)
n	Optional. Number of randomisation for pvalue computation. (Default = 100)
correction.method	Optional. Multiple testing correction method. Options are; c("holm", "hochberg", "hommel", "bonferroni", "BH", "BY", "fdr", "none") (Default = 'bonferroni')
pval.cutoff	Optional. Adjusted pvalue cutoff for regulator selection. (Default = 0.01)

Value

scores = n x 5 dimensional data frame with columns giving neighborhood based score, adjusted pvalue, whether a gene is regulator/global regulator.

Sage-Bionetworks/metanetwork documentation built on April 27, 2022, 7:42 a.m.