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How to handle TCGA RNAseq data? #115

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apxmfrstmc opened this issue Mar 6, 2023 · 2 comments

apxmfrstmc commented Mar 6, 2023

If I want to analyze the RNAseq data of TCGA, which data should be used? count or tpm or fpkm?

jebard commented Apr 7, 2023

Helpful reference that explores normalizations and the effects on deconvolution -- https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7648640/

ChiaraCaprioli commented Nov 16, 2023

And here an update https://genomebiology.biomedcentral.com/articles/10.1186/s13059-023-03016-6

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