Entering edit mode
7.1 years ago
jjrin
▴
40
Hello, I have recently normalized my read counts (NumReads in Salmon output) and I would like to get the new updated TPMs using these Numreads counts. Is there a method I could go around doing this? The effective length and length would be the same regardless. I have all of the same data available, just with different NumReads now. Knowing how Salmon gets TPM counts would be beneficial as well. Thank you!
Decent explanation of the units: http://www.rna-seqblog.com/rpkm-fpkm-and-tpm-clearly-explained/
R script for conversion:
binary for conversion: https://github.com/mforde84/tpmcalc