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nick-youngblut / gtdb_to_taxdump

Convert GTDB taxonomy to NCBI taxdump format
MIT License
66 stars 13 forks source link

how to install? #6

Closed gruningerrj closed 3 years ago

gruningerrj commented 3 years ago

This looks like a very useful tool but I am struggling to figure out how to install it and how to use the scripts. I tried to clone the repo using git and that seemed to work but none of the scripts will run.

I have a set of MAGs that have been taxonomically characterized with gtdb-tk and I want to take those classifications and convert them to ncbi taxid so I can use the MAGs as a custom Kraken database. This looks like it would do what I am looking for but I am not sure how to install and then run it. Could you provide guidance as to whether this tool will work for that? Thanks

nick-youngblut commented 3 years ago

It's just a couple of python scripts that vary in which dependencies are needed. See the README for the list fo dependencies.