bc3net (version 1.0.4)

Gene Regulatory Network Inference with Bc3net

Description

Implementation of the BC3NET algorithm for gene regulatory network inference (de Matos Simoes and Frank Emmert-Streib, Bagging Statistical Network Inference from Large-Scale Gene Expression Data, PLoS ONE 7(3): e33624, ).

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Version

Install

install.packages('bc3net')

Monthly Downloads

300

Version

1.0.4

License

GPL (>= 2)

Maintainer

Ricardo de Matos Simoes

Last Published

November 28th, 2016

Functions in bc3net (1.0.4)

bc3net-package

BC3NET Gene Regulatory network Inference

getgcc

Extracting the giant connected component from an igraph object

makenull

Generate a mutual information null distribution from a gene expression matrix

c3mtc

'c3mtc' gene regulatory network inference using c3net with multiple testing correction procedure

bc3net

Bc3net gene regulatory network inference

exgensets

Example gene sets defined from the CPDB database

enrichment

Function that performs a functional enrichment analysis based on a one-sided Fisher's exact teset (hypergeometric test).

gpea

Gene pair enrichment analysis (GPEA)

expmat

Test gene expression dataset

exanet

Example gene regulatory network for testing purposes only

mimwrap

Wrapper function for mutual information matrix estimators