tximport failing at importing TPM instead of FPKM
2
0
Entering edit mode
@fresardlaure-12591
Last seen 6.7 years ago

Hi,

I am willing to import TPM from RSEM output files. I noticed that I still obtain the FPKM values even if I am using the argument abundanceCol="TPM"

my command line is currently rsem = tximport(<list_of_genes.results_files>, type='rsem', txIn = FALSE, abundanceCol="TPM")

Thanks a lot in advance for your help,

All the best,

Laure

 

tximport rnaseq rsem • 1.3k views
ADD COMMENT
2
Entering edit mode
@mikelove
Last seen 1 day ago
United States

Thanks. This is already fixed in the devel branch and will show up in the release in April. Note that you can always set the columns manually by setting type=“none”.

ADD COMMENT

Login before adding your answer.

Traffic: 972 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6