I'm using a software that requieres either TPM or raw counts at gene level.
So I downloaded this data set from Xena browser: https://xenabrowser.net/datapages/?dataset=TCGA.SKCM.sampleMap%2FHiSeqV2&host=https%3A%2F%2Ftcga.xenahubs.net
This matrix seems to be the log2(RSEM output + 1)
Am I wrong If said that by doing the antilog2 of the counts of this matrix, then subtract 1 I get TPM?
I've not been able to find raw counts at gene level. TCGAbiolinks as far as I've seen only provides htseq counts at transcript level.