Is there CLI provision for transcript exclude list?

tleonardi / nanocompore

RNA modifications detection from Nanopore dRNA-Seq data

https://nanocompore.rna.rocks

GNU General Public License v3.0

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Is there CLI provision for transcript exclude list? #186

Open DrOllyGomez opened 3 years ago

DrOllyGomez commented 3 years ago

I note you have some capability in the API for specifying a list of transcript/ref accessions/ids to act as an exclude list.

I cant see a CLI switch to provide a filesystem path to specify a textfile of such accessions/ids.

Wondered if that was just an ommission from the docs, or if there is no provision for it at the moment

Describe the solution you'd like CLI switch: --exclude-list /some/path/to/IDs/of/boring/abundanttranscripts.txt

Many thanks and congrats on Nanocompore!!!

tleonardi commented 3 years ago

Hi @DrOllyGomez, you're right, the option is available but not exposed in the CLI. Can be implemented quite easily, I'll leave this open and will take care of it for the next release!