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02-10-2020, 03:19 AM
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Junior Member
Location: Athens Join Date: Mar 2018
Posts: 6
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Pfam search using hmmer but only for a specific taxonomy
I am trying to do a de novo assembly using Trinity. Using Transdecoder and blastp/hmmscan search to do annotation (using Uniprot/pfam databases). https://github.com/TransDecoder/TransDecoder/wiki . But i would like to do a blastp/hmmscan search only for a specific taxonomy, viridiplantae to be more precise (taxid: 33090). I managed to find a Uniprot database for plants only, but my problem is how to find a pfam database specific for plants. Here : http://pfam.xfam.org/search#tabview=tab1 there is the taxonomy tab, but when checking the box "find unique.." it returns an error. Thanks in advance
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| Tags |
| annotation, blast, denovo assembly, taxonomy |
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