Hi all,
I was wondering how to generate heatmap as in here
The colors inside the heatmap is confusing - how do a give colors to the separate dataset type- methylation , copy number etc?
Thanks in advance! Mmata
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datanerd
Look at this post.
Individual colors for heatmaps using ngsplot
deepTools explain different colors. http://deeptools.readthedocs.org/en/latest/content/tools/plotHeatmap.html
This article below explains what you want - colors for methylation in different samples, etc
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4220495/figure/f2/
See their gallery, they provide some code inside.
It was my comment, I unsuccessfully changed it to a probable answer. Sorry if I did something wrong.
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As in what? Something is missing from your post ;)
It looks close to answer...
Looks like you are able to read @Mamta's mind since you have already provided an answer.
The figure you linked to was likely made with heatmap.3 in R, for whatever that's worth.
Thanks Devon. Iam using heatmap.plus (but should be similar) The thing that I dont understand is the color coding for different columns inside the heatmap. We usually use a colorscale for expression range, but this one is a binary matrix- so not sure how to show the colors for each type. Please let me know of any suggestions.
They have the actual heatmap, but then they also have group labels in different colors.
As Igor said, the binary coloring is for group designations.