Workflow Designer Documentation v. 1.16.0
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  • ChIP-Seq Coverage

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The workflow sample, described below, prepare ChIP-Seq processed data (with BedTools and bedGraphToBigWig) for visualization in a genome browser. For input BED-file produces BigWig file.

Tip
titleHow to Use This Sample

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 "ChIP-Seq Coverage" can be found in the "NGS" section of the Workflow Designer samples.

Workflow Image

The opened workflow looks as follows:

HTML
<center>
  <br>
  <img src="/wiki/download/attachments/13008919/Chip-Seq Coverage.png"/>
  <br> 
</center>
Workflow Wizard

The wizard has 3 pages.

  1. Input data Page: On this page you must input BED file with ChIP-Seq tags. 

    HTML
    <center>
  <br>
  <img src="/wiki/download/attachments/13008919/Chip-Seq Coverage_1.png"/>
  <br> 
</center>

     

  2. Parameters Page: Here you can optionally modify parameters that should be used for the Slopbed, Genome Coverage and BedGraphToBigWig elements.

    HTML
    <center>
  <br>
  <img src="/wiki/download/attachments/13008919/Chip-Seq Coverage_2.png"/>
  <br> 
</center>

  3. Output Files Page: On this page you can select an output directory:

    HTML
    <center>
  <br>
  <img src="/wiki/download/attachments/13008919/Chip-Seq Coverage_3.png"/>
  <br> 
</center>