# GeneNetworkBuilder: a bioconductor package for building regulatory network using ChIP-chip/ChIP-seq data and Gene Expression Data

## Documentation for package ‘GeneNetworkBuilder’ version 1.55.0

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Package NEWS
- Package README

## Help Pages

GeneNetworkBuilder-package | Build Regulatory Network from ChIP-chip/ChIP-seq and Expression Data
browseNetwork | browse network
browseNetwork-shiny | Shiny bindings for browseNetwork
browseNetworkOutput | Shiny bindings for browseNetwork
buildNetwork | construct the regulatory network
ce.IDsMap | C.elegns gene name to wormbase identifier map
ce.interactionmap | transcript regulatory map of _Caenorhabditis elegans_
ce.mapIDs | map file for converting from wormbase identifier to _Caenorhabditis elegans_ gene name
ce.miRNA.map | micro RNA of _Caenorhabditis elegans_
convertID | convert gene IDs by id map
cy3Network | visualize the network by Cy3
example.data | example datasets for documentation
exportNetwork | Save network in various formats
filterNetwork | filter the regulatory network table by expression profile
GeneNetworkBuilder | Build Regulatory Network from ChIP-chip/ChIP-seq and Expression Data
hs.IDsMap | map file for converting gene name or sequence name of _Homo sapiens_ to Entrez identifier
hs.interactionmap | transcript regulation map of _Homo sapiens_
hs.mapIDs | map file for converting from Entrez identifier to _Homo sapiens_ gene name
hs.miRNA.map | micro RNA of _Homo sapiens_
networkFromGenes | Build network by a list of given genes
polishNetwork | generate an object of grahpNEL to represent the regulation network
renderBrowseNetwork | Shiny bindings for browseNetwork
saveXGMML | Save network as xgmml
subsetNetwork | Subset a polished network
uniqueExprsData | unique the microarray data