GenerateNetworks-methods {R3CPET} | R Documentation |
igraph
networksThis methods converts the networks
slot of a ChromMaintainers
object,
it reads the topEdge
slot and convert it into a list of igraph
objectts.
## S4 method for signature 'ChromMaintainers' GenerateNetworks(object,...)
object |
a |
... |
future options not considered for the moment. |
Returns ChromMaintainers
object in which the networks
slot is populated.
Mohamed Nadhir Djekidel (nde12@mails.tsinghua.edu.cn)
ChromMaintainers
, InferNetworks
## 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)