Tool/scripts for quantifying proportion of aligned RNA-seq reads on the basis of their types ?
0
0
Entering edit mode
7.4 years ago
Siddharth • 0

I'm working with RNA-seq data and I'm already done with alignment(i.e. I have the BAM files). My question is:

Is there a tool or script which can quantify the aligned reads on the basis of their types, i.e. mRNA, lncRNA, miRNA etc just from the alignment files (BAM ) and annotation files (GTF/BED). I need the data in form of number of aligned reads belonging to each RNA type. The reason I need that data is because I want to plot the population of each type for each alignment file I have.

Thank you!

RNA-Seq R python alignment • 1.3k views
ADD COMMENT

Login before adding your answer.

Traffic: 1295 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