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.
If you haven't used the workflow samples in UGENE before, look at the "How to Use Sample Workflows" section of the documentation. |
The workflow sample "Extract Coverage from Assembly" can be found in the "NGS" section of the Workflow Designer samples.
The opened workflow looks as follows:
<center> <br> <img src="/wiki/download/attachments/13008925/Extract Coverage from Assembly.png"/> <br> </center> |
The wizard has 3 pages.
Input assembly (-ies) Page: On this page you must input assembly(-ies).
<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.
<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:
<center> <br> <img src="/wiki/download/attachments/13008925/Extract Coverage from Assembly_3.png"/> <br> </center> |