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heatmap2 in R, figure doesn't show column name.
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Entering edit mode
2.2 years ago
jeongmeani • 0

Hi

I have to make Heatmap using microarray data. this data have about 10,000 genes so the figure i made is large that size is 500*35000. the number of samples are 6.

but the column name(sample name) of figure is cut .

my code is

heatmap2(as.matrix(heatmap_input[,c(2:ncol(heatmap_input))]),,trace="none",scale=zscore,lhei=c(1,5),lwid=cf(0.5,4),margins=c(2,10)cexRow=0.5,cexCol=0.9,)


and image is below.

heatmap R • 577 views
1
Entering edit mode

You missed a comma before cexRow and I don't think the one after cexCol=0.9 is needed.

Try to play with notecex, cexRow and cexCol

You want to display 10 000 genes on a single heatmap ? It's ambitious

0
Entering edit mode
19 months ago
National Centre for Cell Science, Pune

Sometimes in graphics device you can't see all stuff from your heatmaps. So, try exporting it in pdf and play with dimensions and margins.