Can anyone tell me how to create a heatmap using circos software? I also wish to know the input format to be fed in the software. Anyone who has the knowledge on Perl can really help me in teaching this software.
Dear edwin,
Thank you for the response. Well, my array data is really large and i cant able to represent all the genes in the normal heatmap, instead i wish to represent in the circular form which can be obtained using the circos software.
with regards,
R.Santhosh kalash
try using https://github.com/buzzmak/circos-arrayQC
it will not paint a heatmap of array data, instead it paints quality measures of affymetrix data, however, it might get you a starting point for your task.
hth
Currently the method supports Affymetrix arrays only. It is a proof of concept. However, if generally accepted, i can imagine to extend the method to other array types as well.
me too, i am using ggplot2 for creating a heatmap:
http://code.google.com/p/martool/source/browse/branding/src/main/resources/in/mbio/mart/rScripts/RPreview.R
a enhanced function called heatmap.2 in R package "gplots" is really good, controllable, beautiful. You can choose color by "RColorBrewer" package
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