BCheatmap {s4vd} | R Documentation |
Overlap Heatmap for the visualization of overlapping biclusters
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 \ m.sill@dkfz.de
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)
[Package s4vd version 1.1-1 Index]