Dataset Open Access

Test data for running snakePipes : DNA-mapping workflow

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


DataCite XML Export

<?xml version='1.0' encoding='utf-8'?>
<resource xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xmlns="http://datacite.org/schema/kernel-4" xsi:schemaLocation="http://datacite.org/schema/kernel-4 http://schema.datacite.org/meta/kernel-4.1/metadata.xsd">
  <identifier identifierType="DOI">10.5281/zenodo.3707259</identifier>
  <creators>
    <creator>
      <creatorName>Bhardwaj, Vivek</creatorName>
      <givenName>Vivek</givenName>
      <familyName>Bhardwaj</familyName>
      <nameIdentifier nameIdentifierScheme="ORCID" schemeURI="http://orcid.org/">0000-0002-5570-9338</nameIdentifier>
      <affiliation>Max Planck Institute of Immunobiology and Epigenetics</affiliation>
    </creator>
    <creator>
      <creatorName>Heyne, Steffen</creatorName>
      <givenName>Steffen</givenName>
      <familyName>Heyne</familyName>
      <affiliation>Max Planck Institute of Immunobiology and Epigenetics</affiliation>
    </creator>
    <creator>
      <creatorName>Ryan, Devon P</creatorName>
      <givenName>Devon P</givenName>
      <familyName>Ryan</familyName>
      <affiliation>Max Planck Institute of Immunobiology and Epigenetics</affiliation>
    </creator>
    <creator>
      <creatorName>Manke, Thomas</creatorName>
      <givenName>Thomas</givenName>
      <familyName>Manke</familyName>
      <affiliation>Max Planck Institute of Immunobiology and Epigenetics</affiliation>
    </creator>
  </creators>
  <titles>
    <title>Test data for running snakePipes : DNA-mapping workflow</title>
  </titles>
  <publisher>Zenodo</publisher>
  <publicationYear>2018</publicationYear>
  <dates>
    <date dateType="Issued">2018-08-21</date>
  </dates>
  <resourceType resourceTypeGeneral="Dataset"/>
  <alternateIdentifiers>
    <alternateIdentifier alternateIdentifierType="url">https://zenodo.org/record/3707259</alternateIdentifier>
  </alternateIdentifiers>
  <relatedIdentifiers>
    <relatedIdentifier relatedIdentifierType="DOI" relationType="IsVersionOf">10.5281/zenodo.1346302</relatedIdentifier>
  </relatedIdentifiers>
  <version>1.0.0</version>
  <rightsList>
    <rights rightsURI="https://creativecommons.org/licenses/by-sa/4.0/legalcode">Creative Commons Attribution Share Alike 4.0 International</rights>
    <rights rightsURI="info:eu-repo/semantics/openAccess">Open Access</rights>
  </rightsList>
  <descriptions>
    <description descriptionType="Abstract">&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;
&lt;/ul&gt;</description>
  </descriptions>
</resource>
561
506
views
downloads
All versions This version
Views 561279
Downloads 506261
Data volume 72.3 GB36.4 GB
Unique views 511247
Unique downloads 16596

Share

Cite as