index.html

---
layout: default
title: "Home"
group: "navigation"
order: 1
---

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<!-- Describe what gkno is.-->
<hr>
<div class='section'>
  <div class="section-title">A bioinformatics pipeline launcher</div>
  <div class='description'>
    gkno opens the world of complex bioinformatic analysis to people of all level of computational expertise. This site contains documentation, tutorials and information
    on all the tools that comprise gkno.
  </div>

  <!-- Provide a link for downloading gkno -->
  <div class='section-title'><a href="http://gkno.me/install.html">Get gkno</a></div>
  <div class='description'>
    Learn how to download, install and maintain gkno and get data resources.
  </div>

  <!-- Give an example describing variant calling and visualisation -->
  <hr>
  <div class='section-subtitle'>Example: Call and visualize variants</div>
  <div class='description'>
    Use the gkno freebayes pipeline to call and filter variants. Easily parallelize calling over multiple regions and generate
a compressed and indexed vcf file. The <a href="http://iobio.io">iobio</a> project allows visualization and real-time analysis
of large data sets. Having generated variant calls for your sample, use <a href="http://vcf.iobio.io">vcf.iobio</a> to view
global summary statistics.
  </div>
  <ul id="apps">
    <li>
      <div class='app'>
        <div class='app-title'><a href="http:///pipelines.html#freebayes">gkno freebayes variant calling pipeline</a></div></br>
        <a href="http:///pipelines.html#freebayes"><img src="/public/images/pipelines/freebayes.png" style="width:450px; height:100px;"></img></a>
      </div>
    </li>
    <li>
      <div class='app'>
        <div class='app-title'><a href="http://vcf.iobio.io">vcf.iobio: real-time variant visualization</a></div>
        <a href="http://vcf.iobio.io"><img src="/public/images/vcf.iobio_wide.png" style="width:450px; height:300px;"></img></a>
      </div>
    </li>
  </ul>
</div>