Intron retention gene expression using salmon
Entering edit mode
17 months ago
shinyjj ▴ 50

I have a list of intron retention found in my short read data. I want to see if those intron retentions are lowly expressed. Can somebody comment on my experiment step if this is correct?

  1. Run my data (bam file) using salmon
  2. Sum up the TPM level of the same transcripts that contain intron retentions
  3. Check the distribution of TPM level that contains intron retentions using boxplot

Another question popped up in my head is that are there any tools to quantify gene expression like salmon using long read data as well?

salmon intron-retention • 522 views

Login before adding your answer.

Traffic: 2808 users visited in the last hour
Help About
Access RSS

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

Powered by the version 2.3.6