pipelines.github.io/index.html at master · pipelines/pipelines.github.io · GitHub

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<!doctype html>
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    <title>Pipelin.es by pipelines</title>

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        <h1>Pipelin.es</h1>

        <p><b>Resources</b></p>
        <p class="view">
          <a href="https://github.com/pipelines">GitHub</a>
          <br>
          <a href="https://bitbucket.org/pipelines/">Dockerfiles</a>
          <br>
          <a href="https://hub.docker.com/u/pipelines/">Container Builds</a>
          <br>
          <a href="https://TODO">Documentation</a>
        </p>
        <hr>

        <p><b>NGS Pipeline arsenal</b></p>
        <p class="view">
          <a href="https://registry.hub.docker.com/u/pipelines/nesoni-docker/builds_history/262584/">Nesoni</a>
        </p>
        <hr>

        <p><b>Still contructing</b></p>
        <p class="view">
          <a href="https://github.com/mscook/Banzai-MicrobialGenomics-Pipeline">Banzai</a>
          <br>
          <a href="https://github.com/tseemann/nullarbor">nullarbor</a>
          <br>
          <a href="https://github.com/dsarov/SPANDx">SPANDx</a>
          <br>
          <a href="https://github.com/katholt/RedDog">RedDog</a>
          <br>
          <a href="https://QUICKSTART.TODO">Submit your own</a>
        </p>
        <hr>

      </header>
      <section>
        <p><img src="https://raw.githubusercontent.com/pipelines/pipelines.github.io/master/images/Pipelines_logo_cropped.png" alt="Pipelin.es logo"></p>

<h1>
<a id="pipelines-is-a-ngs-data-analysis-pipeline-evaluation-tool" class="anchor" href="#pipelines-is-a-ngs-data-analysis-pipeline-evaluation-tool" aria-hidden="true"><span class="octicon octicon-link"></span></a>Pipelin.es is a NGS data analysis pipeline evaluation tool</h1>

<h2>
<a id="about" class="anchor" href="#about" aria-hidden="true"><span class="octicon octicon-link"></span></a>About</h2>

<p>Using <a href="http://docker.com">docker</a> containers to perform continuous evaluation of (microbial) NGS pipelines. Inspired by Michael Barton's <a href="http://nucleotid.es">nucleotid.es</a>.</p>

<p>Dockerfiles can be found on: <a href="https://bitbucket.org/pipelines/">bitbucket</a>. Automated docker container builds can be found at: <a href="https://hub.docker.com/u/pipelines/">Docker Hub</a>. Documentation at <a href="https://TODO">ReadTheDocs</a>.</p>

<h2>
<a id="history" class="anchor" href="#history" aria-hidden="true"><span class="octicon octicon-link"></span></a>History</h2>

<p>Some of the initial concepts were nutted out at <a href="http://theamigos.space">AMIGOS 2015</a>. The idea to compare the results of the "Australian" microbial genomics pipelines was pitched by Jason Kwong.</p>

<p>The following representatives from pipeline development teams joined Jason -</p>

<ul>
<li>Melinda Ashcroft (<a href="https://github.com/mscook/Banzai-MicrobialGenomics-Pipeline">Banzai</a>)</li>
<li>Mark Davies (Sanger)</li>
<li>David Edwards (<a href="https://github.com/katholt/RedDog">RedDog</a>)</li>
<li>Jason Kwong (<a href="https://github.com/tseemann/nullarbor">nullarbor</a>)</li>
<li>Derek Sarovich (<a href="https://github.com/dsarov/SPANDx">SPANDx</a>)</li>
</ul>

<p>Mitchell Stanton-Cook donated his beloved pipelin.es domain to the cause.</p>

<p><a href="mailto:mitch@pipelin.es">Mitchell Stanton-Cook</a> is the core maintainer.</p>

<h3>
<a id="mailing-list" class="anchor" href="#mailing-list" aria-hidden="true"><span class="octicon octicon-link"></span></a>Mailing list</h3>

<p><a href="http://pipelin.es/list.html">Sign up here</a>.</p>
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