networkFromGenes: Build network by a list of given genes

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

Build network by a list of given genes

Description

By providing a list of given genes, build a network for input of filterNetwork.

Usage

networkFromGenes(genes, interactionmap, level = 3, unrooted = FALSE)

Arguments

genes	A vector of character for interested genes.
interactionmap	Transcription regulatory map. Column names of interactionmap must be 'from','to'
level	Depth of node path
unrooted	Return unrooted regulatory network table or not.

Value

a list with elements: rootgene: The nodes with maximal connections. sifNetwork: Transcription regulatory network table.

Examples

data("ce.interactionmap")
data("example.data")
genes <- as.character(example.data$ce.bind$from)
xx<-networkFromGenes(example.data$ce.bind, ce.interactionmap, level=2)

jianhong/GeneNetworkBuilder documentation built on Nov. 4, 2024, 5:54 a.m.