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Old 10-09-2015, 05:57 AM   #1
FelipeAd
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Default GO functional annotation of sequences

What is the best free software to annotate fasta sequences using GO terms?

I am looking for a tool similar to blast2go.
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Old 10-09-2015, 10:04 AM   #2
Mocca
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Have you checked out the Trinotate pipeline? Quite extensive, but provides a pretty good annotation. You could run just the GO annotation steps or the whole thing using blast, signalp... I also found that the Trinity/Trinotate folks have a topGO script (not extensively tested though). This might be useful as I spent a lot of time parsing the trinotate report into lists of GO:annotations which I further used in Cytoscape/BinGO. I work on a non-model vertebrate.
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