Question: How to meassure transcript expression from Oxford nanopore sequencing data
0
gravatar for caggtaagtat
10 weeks ago by
caggtaagtat420
caggtaagtat420 wrote:

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?

ADD COMMENTlink modified 10 weeks ago by WouterDeCoster36k • written 10 weeks ago by caggtaagtat420
3
gravatar for WouterDeCoster
10 weeks ago by
Belgium
WouterDeCoster36k wrote:

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.

ADD COMMENTlink modified 10 weeks ago • written 10 weeks ago by WouterDeCoster36k

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

ADD REPLYlink written 10 weeks ago by caggtaagtat420
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