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ComplexHeatmap - How to change fontsize of rowAnnotation

I am trying to work get the fontsize of a heatmap rowannotation customized. How can I achieve this endeavor?

Here is my code:

mark_at = which(rownames(mat_ht) %in% gene_names_interesting_in_clusters) # look up label names which should be displayed

ha = rowAnnotation(text = anno_mark(at = mark_at, labels = gene_names_interesting_in_clusters),annotation_name_gp = gpar(fontsize = 2)) # set rowAnnotations and change fontsize

if (save_plots=='yes') {
    tiff(file="heatmap_genes_of_upreg_upon_aRinp100test.tiff",width = 6, height = 6, units = 'in',res = 600)
} 
Heatmap(mat_ht, name = "Z-score", cluster_rows = TRUE, cluster_columns = FALSE,  right_annotation = ha,
        show_row_names = FALSE, show_column_names = FALSE,row_names_gp = gpar(fontsize = 4), km=16,row_title_gp = gpar(fontsize = 4)) 
        if (save_plots=='yes') {
            dev.off()
        } # create heatmap

Many thanks in advance!

r complexheatmap
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updated by Ram Ram • written by hannes.bongartz • hannes.bongartz

Try tweaking the gp of the rowAnnotation instead of tweaking the annotation_name_gp - that might do the trick.

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written by Ram Ram

Thank you. What exactly do you mean? Changing ha = rowAnnotation(text = anno_mark(at = mark_at, labels = gene_names_interesting_in_clusters),annotation_name_gp = gpar(fontsize = 2)) to ha = rowAnnotation(text = anno_mark(at = mark_at, labels = gene_names_interesting_in_clusters),gp = gpar(fontsize = 2))?

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updated by Ram Ram • written by hannes.bongartz • hannes.bongartz

Yes. The solution to most things with ComplexHeatmap is to play around with parameters.

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written by Ram Ram

It doesn't work. The annotation labels are still in a default fontsize. I cant find a way to set the fontsize.

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written by hannes.bongartz • hannes.bongartz

Thanks for the input. Unfortunately, that didn't help either. I appreciate any other tips.

Thank you

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written by hannes.bongartz • hannes.bongartz

I still cannot find a way. It seems to be an easy to solve issue and I was trying any possible combination with the aforementioned gp=gpar(fontsize=...) solutions. However, I wasnt able to resolve it. Can please someone help? Thank you

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written by hannes.bongartz • hannes.bongartz

Please do not add answers unless you're actually answering the question. I've moved your post to a comment.

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written by Ram Ram

1 answer 

set.seed(1)
m = matrix(rnorm(100), nrow = 10)
rownames(m) = 1:10

# normal
ha = rowAnnotation(foo = anno_mark(at=1:nrow(m), labels=rownames(m)))
Heatmap(m, name = "mat", cluster_rows = FALSE, right_annotation = ha, show_row_names = FALSE)

enter image description here

# bigger labels
ha = rowAnnotation(foo = anno_mark(at=1:nrow(m), labels=rownames(m), labels_gp = gpar(fontsize=20)))
Heatmap(m, name = "mat", cluster_rows = FALSE, right_annotation = ha, show_row_names = FALSE)

enter image description here

The labels_gp within anno_block is the key.

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written by ATpoint ATpoint

A small educational note: if an answer was helpful, you should upvote it; if the answer resolved your question, you should mark it as accepted. You can accept more than one answer if they work. This will help future users that might find this post find the right answer.

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written by Ram Ram

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