Entering edit mode
2.0 years ago
Andrea
▴
10
Hi,
I have a problem in importing quant.sf files. I've already read a lot of posts, but I can't solve the issue. I have ~600 quant.sf files obtained from Dragen RNA analysis and they are all in the same folder. I would like to import them in R to make DE analysis and I also would like to obtain a counts and a TPM matrices. The output of Dragen has already the transcript ID, the length, the count and the TPM in each file.
Thank you!
...and what is the problem? Instructions for salmon (that is the tool that produces these quant.sf files) to tximport is here: https://bioconductor.org/packages/release/bioc/vignettes/tximport/inst/doc/tximport.html#Salmon