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index.html
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---
layout: landing
---
<!-- Banner -->
<section id="banner">
<div class="inner">
<h2>{{ site.title }}</h2>
<p>{{ site.description | markdownify }}</p><br>
<ul class="actions">
<li><a href="wiki/BioJava%3AGetStarted" class="button special">Get started</a></li>
</ul>
</div>
<a href="#one" class="more scrolly">Learn More</a>
</section>
<!-- One -->
<section id="one" class="wrapper style1 special">
<div class="inner">
<header class="major">
<h2>Open source</h2>
<p>The project is hosted, developed, and maintained on GitHub.</p>
<a href="https://github.com/biojava/biojava" class="button">GitHub project</a>
</header>
</div>
</section>
<!-- Two -->
<section id="two" class="wrapper alt style2">
<section class="spotlight">
<div class="image"><img src="images/4hhb.png" alt="" /></div><div class="content">
<h2>Protein structures</h2>
<p>BioJava provides an API to maintain local installations of the PDB, load and manipulate structures, perform standard analysis such as sequence and structure alignments and visualize them in 3D.</p>
</div>
</section>
<section class="spotlight">
<div class="image"><img src="images/1d68.png" alt="" /></div><div class="content">
<h2>Biological sequences</h2>
<p>BioJava supports reading and writing popular sequence file formats, translating DNA sequences into proteins and other common bioinformatics routines.</p>
</div>
</section>
<section class="spotlight">
<div class="image"><img src="images/1ihm.png" alt="" /></div><div class="content">
<h2>Please cite<br />
</h2>
{% capture my-citation %}{% include citation-2019.md %}{% endcapture %}
{{ my-citation | markdownify }}
</div>
</section>
</section>
<!-- Three -->
<section id="three" class="wrapper style1 special">
<div class="inner">
<header class="major">
<h2>Get in touch</h2>
<p>
Questions, comments, and communications regarding BioJava can be done either on <a href="https://github.com/biojava/biojava/issues">
<span class="label">GitHub</span></a> or through the <a href="http://lists.open-bio.org/mailman/listinfo/biojava-l">
<span class="label">BioJava mailing list</span></a>. Subscribe to stay up to date!
</p>
</header>
<ul class="icons major">
<li><span class="icon fa-envelope-o major style1"></span></li>
<li><span class="icon fa-heart-o major style2"></span></li>
<li><span class="icon fa-code major style3"></span></li>
</ul>
</div>
</section>
<section id="three" class="wrapper style3 special">
<div class="inner">
<ul class="features">
<li class="icon fa-graduation-cap">
<h3>Tutorial</h3>
<p>The tutorial offers an introduction into some of the features provided by BioJava.</p>
<a href="https://github.com/biojava/biojava-tutorial" class="button">Tutorial</a>
</li>
<li class="icon fa-rocket">
<h3>CookBook</h3>
<p>The Cookbook provides simple coding recipes to common bioinformatics problems using BioJava.</p>
<a href="wiki/BioJava%3ACookBook4.0" class="button">Cookbook</a>
</li>
<li class="icon fa-code">
<h3>Javadoc API</h3>
<p>The Javadocs for the current BioJava {{site.release.version}} release.</p>
<a href="docs/api" class="button">Javadoc API</a></br>
</li>
<li class="icon fa-globe">
<h3>Release {{ site.release.version }}</h3>
<p>BioJava is available from Maven Central.</p>
<a href="https://mvnrepository.com/artifact/org.biojava" class="button">Maven Central</a></br>
</li>
<li class="icon fa-heart-o">
<h3>Wiki</h3>
<p>All pages from the legacy wiki site have been migrated to markdown pages</p>
<a href="wiki.html" class="button">View wiki</a>
</li>
<li class="icon fa-flag-o">
<h3>Legacy Javadoc API</h3>
<p>The Javadocs for BioJava legacy 1.x versions.</p>
<a href="docs/api1.9.5/" class="button">View 1.9.5 API</a>
</li>
</ul>
</div>
</section>
<!-- CTA -->
<section id="cta" class="wrapper style4">
<div class="inner">
<header>
<h2><img src="/images/logo/logo_favicon_250.png" height="60" style="vertical-align:middle"/> Learn More</h2>
<p>Here a couple of pointers to get you started</p>
</header>
<ul class="actions vertical">
<li><a href="wiki/BioJava%3AGetStarted" class="button fit special">Get started</a></li>
<li><a href="https://github.com/biojava/biojava" class="button fit">Source code</a></li>
</ul>
</div>
</section>