How to meassure transcript expression from Oxford nanopore sequencing data

Question

[caggtaagtat]

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?

Answer 1

[WouterDeCoster]

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.

[caggtaagtat]

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