mbrPreprocess-methods: A preprocessing function for objects of class MBR.

In chagasVinicius/RTNduals: analysis of co-regulatory network motifs and inference of 'dual regulons'.

Description

A preprocessing function for objects of class MBR.

Usage

## S4 method for signature 'matrix'
mbrPreprocess(gexp, regulatoryElements1, regulatoryElements2,
  verbose = TRUE, ...)

Arguments

gexp	A numerical matrix, typically with mRNA and/or miRNA expression values.
regulatoryElements1	A named vector with regulatory elements listed in 'gexp' rownames.
regulatoryElements2	A named vector with regulatory elements listed in 'gexp' rownames.
verbose	A single logical value specifying to display detailed messages (when verbose=TRUE) or not (when verbose=FALSE).
...	Additional arguments passed on to tni.preprocess function.

Value

A preprocessed 'MBR-class' object.

Examples

data("dt4rtn", package = "RTN")
gexp <- dt4rtn$gexp
annot <- dt4rtn$gexpIDs
tfs1 <- dt4rtn$tfs[c("IRF8","IRF1","PRDM1","AFF3","E2F3")]
tfs2 <- dt4rtn$tfs[c("HCLS1","STAT4","STAT1","LMO4","ZNF552")]
##---mbrPreprocess
rmbr <- mbrPreprocess(gexp=gexp, regulatoryElements1 = tfs1, 
regulatoryElements2=tfs2, gexpIDs=annot)

chagasVinicius/RTNduals documentation built on May 13, 2019, 3:10 p.m.