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.uses input assemblies to extract the consensus and save them to a FASTA.
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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 "Remote BLASTingExtract Consensus from Assembly" can be found in the "NGS" section of the Workflow Designer samples.
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<center> <br> <img src="/wiki/download/attachments/13008919/Chip-Seq Coverage13008921/Extract Consensus from Assembly.png"/> <br> </center> |
Workflow Wizard
The wizard has 3 pages1 page.
Input data Extract Consensus 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>Parameters Page: Here you can optionally modify parameters that should be used for the Slopbed, Genome Coverage and BedGraphToBigWig elements.assembly file and output file. Also you can modify other input parameters.
HTML <center> <br> <img src="/wiki/download/attachments/1300891913008921/Chip-Seq Coverage_2.png"/> <br> </center>
Output Files Page: On this page you can select an output directory:
HTML <center> <br> <img src="/wiki/download/attachments/13008919/Chip-Seq Coverage_3Extract Consensus from Assembly_1.png"/> <br> </center>