deepTools - change line colors in profile plots above a heatmap
Hi.
I've generated a heatmap with profile plots above it using 'deepTools'. The heatmap is clustered into 2 groups using '--kmeans' option. The heatmap looks OK, but lines in the profile plots, especially, cluster2 lines are too faint to see. Is there a option to change the colours?
Thank you!
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There's no great way within plotHeatmap to change the profile colors. The simplest thing to do would be to save the output as a PDF and change this in Adobe Illustrator, since those lines should (hopefully) be distinct paths.
As an aside, please post the image somewhere, since with only 2 groups you shouldn't be getting light colors. Also please post your full command.
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