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merenlab / anvio

An analysis and visualization platform for 'omics data
http://merenlab.org/software/anvio
GNU General Public License v3.0
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Import GO annotations from Interproscan #545

Closed xvazquezc closed 7 years ago

xvazquezc commented 7 years ago

Hi @meren, I have been fiddling around and I got to make a simple Shell script to get the IPRS output with -goterms into the anvio database. So I thought somebody would find it useful.

Note that the IPRS output was generated from this command: interproscan.sh -i input.fa -b output -goterms -dp -pa -appl Pfam although it should work perfectly with output from the command without specifying -appl too.

iprs2anvi_go.sh

And as extra an alternate version that also parses the pathways, although I'm not a huge fan of the way IPRS annotates them.. iprsalt2anvio.sh

Cheers, Xabi

meren commented 7 years ago

Hi Xabi,

Thank you very much for sharing!

Although I'm sure Google will cache this and it will appear in online searches, I think the discussion group would have been a very good revenue to make sure it reaches to the most people who may be looking for something like this :)

Best,