gravatar for Pratik Mehta

6 hours ago by

University of Connecticut

I have a gene-gene correlation matrix of about 20,000 genes by 20,000 genes. I am trying to generate a heatmap similar to how JMP can create plots like this:

Image from Sunil Archak (https://sscnars.icar.gov.in/Genetics/11-%20jmp_exp.pdf)

Image from Sunil Archak (sscnars.icar.gov.in/Genetics/11-%20jmp_exp.pdf)

I want to see how the resulting data will look. Unfortunately, as I was typing this R Studio Aborted the session as it was trying to generate the heatmap. Too much to handle?

Any ideas?

Alternatively, I was advised to plot genes by principle components. I may be leaning towards this approach now... unless someone knows a solution to this. I do have a decent amount of cores (16) and and decent amount of RAM 128GB.

Any help would be appreciated.

Very Respectfully,
Pratik



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