This workflow builds a new profile HMM from input alignment, calibrates the HMM and saves to a file. Then runs a test HMM search over sample sequence and saves test results to Genbank file.
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If you haven't used the workflow samples in UGENE before, look at the "How to Use Sample Workflows" section of the documentation. |
Workflow Sample Location
The workflow sample "Build HMM from Alignment and test it" can be found in the "HMMER" section of the Workflow Designer samples.
Workflow Image
The workflow looks as follows:
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<center>
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<img src="/wiki/download/attachments/16122715/Build HMM from Alignment and test it.png"/>
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Workflow Wizard
The wizard has 4 pages.
Input MSA(s): On this page you must input MSA(s).
HTML <center> <br> <img src="/wiki/download/attachments/16122715/Build HMM from Alignment and test it_1.png"/> <br> </center>Input sequence(s): On this page you must input sequence(s).
HTML <center> <br> <img src="/wiki/download/attachments/
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16122715/Build HMM from
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Alignment and test it_2.png"/> <br> </center>
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HMM build: On this page you can modify HMM build parameters.
HTML <center> <br> <img src="/wiki/download/attachments/16122715/Build HMM from Alignment and test it_3.png"/> <br> </center>HMM search: On this page you can modify HMM search and output parameters.
HTML <center> <br> <img src="/wiki/download/attachments/16122715/Build HMM from Alignment and test it_4.png"/> <br> </center>