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InterProScan (v5) to get pathway annotation

Hello:

I am trying to get functional annotation of some protein sequences using InterProScan (v5). Briefly, I want to search the domain information, GO term and pathways. Although I add "-pa" (for pathway) in my command, I only get annotation for domain and Go terms. Does anyone have suggestions on how to get pathway annotation?

my command

interproscan.sh -appl PfamA -iprlookup -goterms -pa -f tsv -i ../proteins.fasta

Many thanks

interproscan pathway go
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updated by Juke34 Juke34 • written by qwzhang0601 qwzhang0601

1 answer

That seems to be correct. If you haven't seen any error message, it means that your proteins are not related to any pathway signature.

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written by Juke34 Juke34

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