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Type:
Improvement
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Status: Closed
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Priority:
Major
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Resolution: Won't Fix
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Affects Version/s: None
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Fix Version/s: None
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Component/s: Basic-Nucl, Basic-Protein
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Tests Type:Functional/Unit
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Sprint:TEST-2014/01/30, TEST-2014/02/06, TEST-2014/02/13, TEST-20/02/2014
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Affect Type:Userdefined
Pfam database (http://pfam.sanger.ac.uk/) is a comprehensive and well-known collection of protein families. It is based on hmm models. But UGENE take advantage of it because of the following lack.
HMM3 search works only with hmm3 files with a single model. But Pfam files contain multiple models in its files. There is no option to use hmm3 in Workflow Designer. So users cannot annotate genomes with Pfam signal in UGENE.
The solution is the following:
1) Allow UGENE do a hmm3 search with multiple hmm models in one file
2) Test it on big data. And if it doesn't work - fix it. Download a Pfam file of the latest release from their FTP and use one of the human chromosomes, for instance.
At least two users required that feature.