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Test data for running snakePipes : DNA-mapping workflow

Bhardwaj, Vivek; Heyne, Steffen; Ryan, Devon P; Manke, Thomas


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    <subfield code="a">&lt;p&gt;&lt;strong&gt;Test files for running snakePipes workflows&lt;/strong&gt;&lt;/p&gt;

&lt;p&gt;&lt;strong&gt;snakePipes&lt;/strong&gt; are pipelines built using snakemake and python for the analysis of epigenomic datasets. Please refer to &lt;a href="https://snakepipes.readthedocs.io/en/latest/"&gt;this link&lt;/a&gt;&amp;nbsp;for further information on snakePipes.&lt;/p&gt;

&lt;p&gt;This folder contains test files that can be used to run DNA-mapping workflow under snakePipes. To test the workflow, follow the following steps :&amp;nbsp;&lt;/p&gt;

&lt;ul&gt;
	&lt;li&gt;Download or prepare genome fasta, indices and annotations for human (&lt;strong&gt;hg38&lt;/strong&gt;) genome.&lt;/li&gt;
	&lt;li&gt;Download and install snakePipes via `conda create -n snakePipes -c mpi-ie -c bioconda -c conda-forge snakePipes`&lt;/li&gt;
	&lt;li&gt;Update &lt;a href="https://snakepipes.readthedocs.io/en/latest/content/running_snakePipes.html#genome-configuration-file"&gt;Genome configuration file&lt;/a&gt;&amp;nbsp;with path to indices and annotations.&lt;/li&gt;
	&lt;li&gt;Move to this repository and run the example &lt;strong&gt;command.sh&lt;/strong&gt;&lt;/li&gt;
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