Import quant.sf files

Question

[Andrea]

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!

[ATpoint]

...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