| mbrPlotDuals {RTNduals} | R Documentation |
This function plots the shared targets for a regulon pair.
mbrPlotDuals(object, dualreg, filepath = NULL, cols = c("#006400FF",
"#CD6600FF"))
object |
A processed object of class MBR evaluated by
the method |
dualreg |
A string indicating the name of a dual regulon. |
filepath |
A string indicating the file path where the plot should be saved. |
cols |
A vector of length 2 indicating a diverging color scheme for negative and positive correlations, respectively. |
A plot showing targets of dual regulons.
##--- 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)
## Not run:
##--- run mbrPermutation
rmbr <- mbrPermutation(rmbr, nPermutations=1000)
##--- run mbrBootstrap
rmbr <- mbrBootstrap(rmbr, nBootstrap=100)
##-- run mbrDpiFilter
rmbr <- mbrDpiFilter(rmbr)
##--- run mbrAssociation
rmbr <- mbrAssociation(rmbr, nPermutations=1000)
##--- get inferred duals and plot the shared cloud of targets
duals <- mbrGet(rmbr, what="dualRegulons")
mbrPlotDuals(rmbr, dualreg=duals[1])
## End(Not run)