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Why does the GDC use unstranded TPM when the library is stranded?

Submitted by Anonymous on

The GDC RNA-Seq workflow generates STAR counts in three different modes: unstranded, stranded_first, and stranded_second. The GDC then uses the unstranded counts as the major output for following-up FPKM and TPM normalizations to facilitate cross-project comparisons of different strandness.