I'm graduate-student in bioinformatics.
i want test my algorithm with TCGA expression data.
This data has TPM value. (so i can't get read count for EdgeR)
I've done DEG analysis to read count with EdgeR.
But this time, I got TPM value which would be used in EdgeR.
How can i analyze differential expression with TPM data?
Hi Gordon Smyth,
Question on your above answer: I have logTPM normalized data. Can I perform DE analysis using it on EdgeR, instead of inputting raw data? Thank you!
I have nothing to add my previous answers, which seem to cover everything.