How to do differential CNA analysis?
Hi all, I got CNA data from TCGA. They provided putative copy-number calls on 616 cases determined using GISTIC 2.0. The values are -2, -1, 0, 1, 2. I have two groups, high-risk & low-risk. I would like to compare the frequency of CNA for each gene, between two groups.
How can I find which genes are more frequently deleted or amplified between these two groups?
I really appreciate any help or suggestion!
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