PrepareData-methods {R3CPET} | R Documentation |
Instead of loading the data one at a time and then creating the index using the methods loadPETs
,loadTFBS
and createIndexes
. The user can directly use the method PrepareData
to do that.
## S4 method for signature 'character,character,logical' PrepareData(petFile,tfbsFile, petIsBed=TRUE)
petFile |
a |
tfbsFile |
a |
petIsBed |
a logical value specifying if the interaction file is in a "bed" format or not. |
A ChiapetExperimentData
object in which the pet
,tfbs
and .dt
slots populated .
Mohamed Nadhir Djekidel (nde12@mails.tsinghua.edu.cn)
Mohamed Nadhir D, Yang C et al 3CPET: Finding Co-factor Complexes in Chia-PET experiment using a Hierarchical Dirichlet Process, ....
ChiapetExperimentData
, loadTFBS
, loadPETs
, loadPPI
, createIndexes
.
## get interactions file location petFile <- file.path(system.file("example",package="R3CPET"),"HepG2_interactions.txt") ## get the TFBS file location tfFile <- file.path(system.file("example",package="R3CPET"),"HepG2_TF.txt.gz") ## Not run: ## load the data x<- PrepareData(petFile, tfFile, FALSE) x ## End(Not run)