This workflow reads an HMM from a file and searches input sequences for significantly similar matches, saves found signals to a file. You can specify several input files for both HMM and sequences, the workflow will process Cartesian product of inputs. That is, each sequence will be searched with all specified HMMs in turn. To specify task parameters, select it and edit interesting fields in table "Parameters" of Property Inspector panel. Schedule the workflow for execution by pressing CTRL+R shortcut. You can watch its" progress in Task View of UGENE.
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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 "Search Sequences with Profile HMM" can be found in the "HMMER" section of the Workflow Designer samples.
Workflow Image
The workflow looks as follows:
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<center> <br> <img src="/wiki/download/attachments/324461516122716/Search sequencesSequences with profileProfile HMM.png"/> <br> </center> | ||
| Tip | ||
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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 Wizard
The wizard has 2 pages.
Input sequence(s): On this page you must input sequence(s).
HTML <center> <br> <img src="/wiki/download/attachments/16122716/Search Sequences with Profile HMM_1.png"/> <br> </center>HMM search: On this page you can modify HMM search parameters.
HTML <center> <br> <img src="/wiki/download/attachments/16122716/Search Sequences with Profile HMM_2.png"/> <br> </center>