Clustered heatmap of signals around the TSSs

Created: 2014-04-03 14:32:39 Last updated: 2014-04-03 14:34:07

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Galaxy workflow based on deepTools which creates a clustered heatmap of signals around the TSS. One bigwig file is needed as input with the signal and an annotation file with your TSS regions. The output will be a heatmap. You can create such a bigwig file with the bamCorrelate tool

For more information please see the deepTools wiki. This workflow is also available via the Galaxy Tool Shed.

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Workflow Components

Inputs (8)

Name	Description
Genes
score file
mode	runtime parameter for tool computeMatrix
mode	runtime parameter for tool computeMatrix
output	runtime parameter for tool heatmapper
advancedOpt	runtime parameter for tool heatmapper
advancedOpt	runtime parameter for tool heatmapper
advancedOpt	runtime parameter for tool heatmapper

Steps (4)

Name	Tool	Description
Input dataset	None
Input dataset	None
computeMatrix	toolshed.g2.bx.psu.edu/repos/bgruening/deeptools/deeptools_computeMatrix/1.1.0
heatmapper	toolshed.g2.bx.psu.edu/repos/bgruening/deeptools/deeptools_heatmapper/1.1.0

Outputs (8)

Name	Type
outFileName	bgzip
outFileNameData	tabular
outFileSortedRegions	bed
outFileNameMatrix	tabular
outFileName	png
outFileNameData	tabular
outFileSortedRegions	bed
outFileNameMatrix	tabular

Information Workflow Type

Galaxy

Information Uploader

Björn Grüning

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Björn Grüning

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Information Statistics

1128 viewings

645 downloads

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Clustered heatmap of signals around the TSSs

Created by Björn Grüning on Thursday 03 April 2014 14:32:39 (UTC)

Last edited by Björn Grüning on Thursday 03 April 2014 14:34:07 (UTC)

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