CoRegNet is an R/Bioconductor package for gene regulatory network inference and analysis.
It uses a a Shiny/Cytoscape.js interface for the analysis of networks.
Install
From R :
source("http://bioconductor.org/biocLite.R")
biocLite("CoRegNet")
- reconsruct a large-scale regulatory network from a gene expression matrix EXP
GRN = hLICORN(EXP)
- Infer transcription factor activity
influence = regulatorInfluence(GRN,EXP)
- Retrieve inferred co-coregulators
coregs= coregulators(GRN,EXP)
- Analyze the network of cooperative regulators using an interactive display
display(GRN,EXP,influence)