mbrDpiFilter-methods: A filter based on the Data Processing Inequality (DPI)...

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

Description

This function takes an MBR object and computes two transcriptional networks filtered by the data processing inequality algorithm.

Usage

## S4 method for signature 'MBR'
mbrDpiFilter(object, verbose = TRUE, ...)

Arguments

object	A processed object of class MBR evaluated by the methods mbrPermutation and mbrBootstrap.
verbose	A single logical value specifying to display detailed messages (when verbose=TRUE) or not (when verbose=FALSE).
...	Additional arguments passed to the tni.dpi.filter function.

Value

An MBR object with two DPI-filtered mutual information matrices, one in each "TNI" slot.

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)
##---mbrPermutation
rmbr <- mbrPermutation(rmbr, nPermutations=10)
##---mbrBootstrap
rmbr <- mbrBootstrap(rmbr, nBootstrap=10)
##---mbrDpiFilter
rmbr <- mbrDpiFilter(rmbr)

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