BCheatmap: Overlap Heatmap for the visualization of overlapping...

In s4vd: Biclustering via Sparse Singular Value Decomposition Incorporating Stability Selection

Description

Heatmap function to plot biclustering results. Overlapping biclusters are indicated by colored rectangles.

Usage

BCheatmap(X, res, cexR = 1.5, cexC = 1.25, axisR = FALSE, axisC= TRUE,
heatcols = maPalette(low="blue",mid="white",high="red", k=50),
clustercols = c(1:5), allrows = FALSE, allcolumns = TRUE)

Arguments

X	the data matrix
res	the biclustering result
cexR	relativ font size of the row labels
cexC	relativ font size of the column labels
axisR	if TRUE the row labels will be plotted
axisC	if TRUE the column labels will be plotted
heatcols	a character vector specifing the heatcolors
clustercols	a character vector specifing the colors of the rectangles that indicate the rows and columns that belong to a bicluster
allrows	if FALSE only the rows assigned to any bicluster will be plotted
allcolumns	if FALSE only the columns assigned to any bicluster will be plotted

Author(s)

Martin Sill \ [e-mail]

Examples

#lung cancer data set   Bhattacharjee et al. 2001
data(lung200)
set.seed(12)
res1 <- biclust(lung200,method=BCs4vd(),pcerv=.5,pceru=0.01,ss.thr=c(0.6,0.65)
,start.iter=3,size=0.632,cols.nc=TRUE,steps=100,pointwise=TRUE
,merr=0.0001,iter=100,nbiclust=10,col.overlap=FALSE)
BCheatmap(lung200,res1)

s4vd documentation built on May 2, 2019, 4:47 p.m.