Question: What transcript quantification tool would you recommend for 3' prime RNA-seq?
gravatar for roy.granit
25 days ago by
roy.granit770 wrote:

I've searched around and could not find (possibly missed) advice on which transcript quantification tool is well suited for 3' prime RNA-seq lib?

I've considered using Salmon, but I'm not sure if it will correct for transcript length which is expected to be only a small part of the transcript

Would be glad to hear your inputs.


P.S. downstream I intend to use DEseq2

ADD COMMENTlink modified 25 days ago by WouterDeCoster36k • written 25 days ago by roy.granit770
gravatar for WouterDeCoster
25 days ago by
WouterDeCoster36k wrote:

Salmon has a --noLengthCorrection flag.

ADD COMMENTlink written 25 days ago by WouterDeCoster36k
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 617 users visited in the last hour