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michaelkyu / PlasX

PlasX, a machine learning classifier for identifying plasmid sequences based on genetic architecture
GNU General Public License v3.0
28 stars 1 forks source link

Alternative methods of annotation #8

Open juanu opened 5 months ago

juanu commented 5 months ago

Thanks for developing this great tool and make it available!

I was wondering if it is possible to use other methods of gene calling and annotation besides Anvio. Looking at the required input files, the requirement is a table with the gene calls, and the other is a table with COG and Pfam annotations, right?

Thank you!!

meren commented 5 months ago

I was wondering if it is possible to use other methods of gene calling and annotation besides Anvio

Absolutely! The input tables are very straightforward and all you need to do is to generate a file for your gene calls matching to the example input table :)

juanu commented 5 months ago

Awesome! Thank you! I'm planning to integrate this tool with our genome assembly and annotation pipeline, so if it works, I'll share the notes and scripts :) Thank you!!