This is a test version of Biostars. For the public version, visit https://www.biostars.org.
How to meassure transcript expression from Oxford nanopore sequencing data

Hi,

I aligned my Oxford nanopore sequencing data of very long transcripts to my reference and would like to know, if you know about a tool to determine transcript expression from them.

There is one python script, I found, called NanoCount, but it depends on Python >= 3.5, which is currently not available on my cluster. Does someone maybe know an alternative program?

rna-seq transcript expression nanopore
• 1,560 views • link
updated by WouterDeCoster WouterDeCoster • written by caggtaagtat caggtaagtat

1 answer

This method should work, but it doesn't look like it's actively maintained. I'd suggest using conda to install the python version you need to get NanoCount working. I adapted your post to include a link.

• 1 views • link
written by WouterDeCoster WouterDeCoster

Thank you, it works fine :) Yes I will do that!

• 1 views • link
written by caggtaagtat caggtaagtat

Log in to answer this question.

More posts like this