# HG changeset patch
# User gtrichard
# Date 1565125743 14400
# Node ID df452f69f66249f12acd74de8789a56a30e0d525
# Parent aa6ae66ecbaf603db3904fa9c231cd58d92824f1
version 0.3.1 and wrapper 1.1.0
diff -r aa6ae66ecbaf -r df452f69f662 datatypes_conf.xml
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/datatypes_conf.xml Tue Aug 06 17:09:03 2019 -0400
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diff -r aa6ae66ecbaf -r df452f69f662 deepStats_macros.xml
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/deepStats_macros.xml Tue Aug 06 17:09:03 2019 -0400
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+ --CPU "\${GALAXY_SLOTS:-4}"
+ 1.1.0
+ https://github.com/gtrichard/deepStats
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+ deepstats
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+ 10.5281/zenodo.3336594
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diff -r aa6ae66ecbaf -r df452f69f662 dsCompareCurves.xml
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/dsCompareCurves.xml Tue Aug 06 17:09:03 2019 -0400
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+ compares multiple genomic scores at multiple regions sets by bootstraps and per-bin distribution test
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+ dsCompareCurves
+ deepStats_macros.xml
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+ `
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+dsCompareCurves: Comparing multiple genomic scores at multiple regions sets
+===========================================================================
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+**dsCompareCurves** assesses if multiple genomics signals (ChIP-seq, ATAC-seq, etc as .bigwig files) are significantly different or not for multiple region sets (.bed files). ``dsCompareCurves`` uses bootstraps and corrected Wilcoxon Rank-sum tests to do so. This tool uses the output of deepTools ``computeMatrix --outFileNameMatrix``, that thus must be used prior to ``dsCompareCurves``. Eitherway the regions are compared for each signal (``--comparison regions``), or all the signals are compared for each region set (``--comparison scores``).
+
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+_______________
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+Example usage
+-------------
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+Below you can find an example of regions comparison.
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+We consider two set of regions, conserved genes, and unconserved genes in Drosophila melanogaster. The want to know which histone marks from modENCODE are differentially enriched between these two regions sets.
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+Prior to ``dsCompareCurves``, we used **deepTools** ``computeMatrix scale-regions`` with the two bed files as regions, and the three histone marks bigwig tracks as scores. We also added the optional parameter ``outFileNameMatrix`` in order to get the output as a tab-delimited file (.txt).
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+The latter file is then used as input for the present tool in "regions", in order to compare the conserved and unconserved genes for each one of the three histone marks. You can find an image describing the output below using the said data set and the following galaxy parameters:
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+.. class:: bold
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+`Example parameters`_
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+.. _Example parameters: https://raw.githubusercontent.com/gtrichard/deepStats/master/docs/images/dsCompareCurves_galaxy.png
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+:raw-html:` `
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+Output description
+++++++++++++++++++
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+.. image:: https://raw.githubusercontent.com/gtrichard/deepStats/master/docs/images/dsCompareCurves_doc.png
+ :width: 800
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+ ]]>
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