Generate a list of igraph networks

Description

This methods converts the networks slot of a ChromMaintainers object, it reads the topEdge slot and convert it into a list of igraph objectts.

Usage

## S4 method for signature 'ChromMaintainers'
GenerateNetworks(object,...)

Arguments

Value

Returns ChromMaintainers object in which the networks slot is populated.

Author(s)

Mohamed Nadhir Djekidel (nde12@mails.tsinghua.edu.cn)

See Also

ChromMaintainers, InferNetworks

Examples

  ## get the different datasets path
  petFile <- file.path(system.file("example",package="R3CPET"),"HepG2_interactions.txt")  
  tfbsFile <- file.path(system.file("example",package="R3CPET"),"HepG2_TF.txt.gz")  
    
## Not run: 
  data(RPKMS)
  x <- ChiapetExperimentData(pet = petFile, tfbs=  tfbsFile, IsBed = FALSE, ppiType="HPRD", filter= TRUE) 
  ## build the diffrent indexes
  x <- createIndexes(x)
  ## build networks connecting each interacting regions
  nets<- buildNetworks(x)

  ## infer the networks
  hlda<- InferNetworks(nets)

  hlda <- GenerateNetworks(hlda)
  networks(hlda)

## End(Not run)