The workflow sample, described below, allows one to extract a coverage and/or bases count from an assembly. It receives a number of assemblies and for each of them produces coverage as a tab delimited plain text file. The coverage is extracted considering a threshold value.
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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 "Extract Coverage from Assembly" can be found in the "NGS" section of the Workflow Designer samples.
Workflow Image
The opened workflow looks as follows:
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<center> <br> <img src="/wiki/download/attachments/13008925/Extract Coverage from Assembly.png"/> <br> </center> |
Workflow Wizard
The wizard has 3 pages.
Input assembly (-ies) Page: On this page you must input assembly(-ies).
HTML <center> <br> <img src="/wiki/download/attachments/13008925/Extract Coverage from Assembly_1.png"/> <br> </center>
Extract parameters Page: Here you can optionally modify extract parameters.
HTML <center> <br> <img src="/wiki/download/attachments/13008925/Extract Coverage from Assembly_2.png"/> <br> </center>
The following parameters are available:
Format Format to store the output. Export Data type to export. Threshold The minimum coverage value to export. Output data Page: On this page you can select an output file:
HTML <center> <br> <img src="/wiki/download/attachments/13008925/Extract Coverage from Assembly_3.png"/> <br> </center>