mbrBootstrap,MBR-method {RTNduals} | R Documentation |
This function takes an MBR object and computes two consensus transcriptional networks.
## S4 method for signature 'MBR' mbrBootstrap(object, verbose = TRUE, ...)
object |
A processed objec of class MBR evaluated by the
method |
verbose |
A single logical value specifying to display detailed messages (when verbose=TRUE) or not (when verbose=FALSE). |
... |
Additional arguments passed to the
|
An MBR object with two consensus mutual information matrices, one in each "TNI" slot.
##--- load a dataset for demonstration data("dt4rtn", package = "RTN") gexp <- dt4rtn$gexp annot <- dt4rtn$gexpIDs tfs <- dt4rtn$tfs[c("IRF8","IRF1","PRDM1","AFF3","E2F3")] ##--- run mbrPreprocess rmbr <- mbrPreprocess(gexp=gexp, regulatoryElements = tfs, rowAnnotation=annot) ##--- run mbrPermutation (nPermutations>=1000) rmbr <- mbrPermutation(rmbr, nPermutations=10) ##--- run mbrBootstrap (nPermutations>=100) rmbr <- mbrBootstrap(rmbr, nBootstrap=10)