how to set the size of cell of heatmap.2 in R

Question

[Zhilong Jia]

How to resize the size of cell in a heatmap via heatmap.2?

The main reason is the row label on the right of heatmap is not shown completely. Thank you.

[xxwildfangxx]

For your problem of showing the row labels on the right of the heatmap.2 add the argument "margins"

e.g.

heatmap.2(x, margins = c(5,20)) # The first number is the bottom margin, and the second is the left margin of the plot

Answer 1

[Devon Ryan]

The size of each row is dependent on (A) how many rows there are and (B) how tall the image/window/whatever is. You can play around with margins a bit, but essentially if you need taller cells then either plot fewer of them or make the whole thing larger.

[komal.rathi]

Exactly. I had similar issues with the row labels not showing completely, I set the margins and it worked.

Answer 2

[Charles Warden]

cexRow and cexCol are probably more helpful overall, but you can also modify the cell sizes using

For example, lhei = c(1,8) and lwid = c(0.5,4) will make the heatmap portion larger relative to the scale (which buys you a little extra space), where the first value is the legend size and the second value is the main heatmap size. If you are plotting dozens of genes, this might matter.

Answer 3

[Alex Reynolds]

Specifiy cexRow in the heatmap.2() call to change the row label font size. For example:

> heatmap.2(..., cexRow=0.075, ...)

Likewise, specify cexCol for column label font size.

I don't know of any way to automate this — it seems necessary to tweak per figure, depending on the number of rows and other features shown. A non-R tool like matrix2png can make this is a little easier if you don't need clustering or dendrograms.