heatmap.with.plot {SIM}R Documentation

heatmap.with.plot

Description

Internal function for the SIM package used in the function sim.plot.zscore.heatmap.

Usage

heatmap.with.plot(dep.data, input.region = input.region, plot.method = plot.method, Normal.data = Normal.data, subtype = subtype, acgh.heatmap.scale = acgh.heatmap.scale, run.name = run.name, lambda = lambda, windowsize = windowsize, x = x, Rowv = NULL, Colv = if (symm) "Rowv" else NULL, distfun = dist, hclustfun = hclust, reorderfun = function(d, w) reorder(d, w), add.expr, symm = FALSE, revC = identical(Colv, "Rowv"), scale = c("row", "column", "none"), na.rm = TRUE, margins = c(5, 5), ColSideColors, RowSideColors, cexRow = 0.2 + 1/log10(nr), cexCol = 0.2 + 1/log10(nc), labRow = NULL, labCol = NULL, main = NULL, xlab = NULL, ylab = NULL, keep.dendro = FALSE, verbose = getOption("verbose"), ...)

Arguments

dep.data Describe dep.data here
input.region Describe input.region here
plot.method Describe plot.method here
Normal.data Describe Normal.data here
subtype Describe subtype here
acgh.heatmap.scale Describe acgh.heatmap.scale here
run.name Describe run.name here
lambda Describe lambda here
windowsize Describe windowsize here
x Describe x here
Rowv Describe Rowv here
Colv Describe Colv here
distfun Describe distfun here
hclustfun Describe hclustfun here
reorderfun Describe reorderfun here
add.expr Describe add.expr here
symm Describe symm here
revC Describe revC here
scale Describe scale here
na.rm Describe na.rm here
margins Describe margins here
ColSideColors Describe ColSideColors here
RowSideColors Describe RowSideColors here
cexRow Describe cexRow here
cexCol Describe cexCol here
labRow Describe labRow here
labCol Describe labCol here
main Describe main here
xlab Describe xlab here
ylab Describe ylab here
keep.dendro Describe keep.dendro here
verbose Describe verbose here
... Describe ... here

Details

If necessary, more details than the description above

Value

Describe the value returned If it is a LIST, use

comp1 Description of 'comp1'
comp2 Description of 'comp2'

Warning

....

Note

further notes

Make other sections like Warning with section{Warning }{....}

Author(s)

Marten Boetzer, Renee X. de Menezes R.X.Menezes@lumc.nl

References

put references to the literature/web site here

See Also

objects to See Also as sim.plot.zscore.heatmap

Examples

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[Package SIM version 1.10.0 Index]