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<!doctype html>
<html>
<head>
<meta charset="utf-8">
<meta http-equiv="X-UA-Compatible" content="chrome=1">
<link rel="shortcut icon" href="http://pacb.com/sites/default/files/pacbio_favicon.png" type="image/x-icon" />
<title>PacBio® DevNet</title>
<link rel="stylesheet" href="stylesheets/styles.css">
<meta name="viewport" content="width=device-width, initial-scale=1, user-scalable=no">
<!--[if lt IE 9]>
<script src="//html5shiv.googlecode.com/svn/trunk/html5.js"></script>
<![endif]-->
</head>
<body>
<div id="wrapper">
<header>
<nav>
<a id="pacbiologo" href="http://pacb.com"><img src="images/pacbio_logo.png" alt="Pacific Biosciences" /></a>
<ul>
<li><a href="http://www.smrtcommunity.com">Home</a></li>
<li><a href="http://www.pacbiosamplenet.com">SampleNet</a></li>
<li><a href="http://www.pacbiodevnet.com">DevNet</a></li>
<li><a href="http://www.pacbioportal.com">Customers</a></li>
<li><a href="http://pacb.com/applications/overview">Applications</a></li>
</ul>
</nav>
<form action="index.html" id="sitesearch">
<input name="cx" type="hidden" value="012727368632080236692:zarsmzfor8i" />
<input name="cof" type="hidden" value="FORID:9" />
<input id="searchstring" name="q" onblur="this.value=!this.value?'Search':this.value;" onclick="this.value='';" onfocus="this.select()" type="search" value="Search" />
</form>
<img id="smrtcommunity" src="images/smrt_community.png"></img>
</header>
<div id="contents">
<section id="pb-search-results">
<div id="cse-search-results">
<h1>Search Results</h1>
</div>
</section>
<section id="pb-devnet">
<h1>PacBio<sup>®</sup> DevNet</h1>
<p>The SMRT<sup>®</sup> developers' network. Open source software, data, documentation and tips for PacBio sequencing.</p>
<div id="pb-news">
<h2><a href="https://github.com/PacificBiosciences/DevNet/wiki/News-and-Features">News and Features</a></h2>
<p>SMRT Analysis gets smarter! The SMRT Analysis v1.4.0 update achieves:</p>
<ul>
<li><strong>99.999%</strong> accurate sequencing results</li>
<li><strong><i>De novo</i> assemblies</strong> from a single library prep</li>
<li><strong>Full-length cDNA transcript</strong> analysis</li>
<li><strong>Barcoding</strong> support</li>
</ul>
<p>Watch the <a href="http://pacb.com/Tutorials/SMRT_Analysis_v14/story.html">webinar</a> (<a href="http://www.pacificbiosciences.com/Tutorials/SMRT_Analysis_v14/story_html5.html">iOS version</a>) for an overview.</p>
</div>
</section>
<section id="pb-releases">
<div class="section-head">
<h2>SMRT<sup>®</sup> Analysis</h2>
<p>PacBio's open source software suite for single molecule, <br />real-time sequencing.</p>
<p class="legalese">Access and/or use is subject to the DevNet <a href="Terms_of_Use.txt">Terms of Use</a>.</p>
</div>
<div>
<details open>
<summary><span>v1.4.0</span></summary>
<h4>Downloads</h4>
<ul>
<li><a class="register" href="http://pacb.com/devnet/files/software/smrtanalysis/1.4/smrtanalysis-1.4-centos-5.6.tgz">smrtanalysis-1.4-centos-5.6.tgz</a> <a href="http://pacb.com/devnet/files/software/smrtanalysis/1.4/smrtanalysis-1.4-centos-5.6.tgz.md5">md5</a></li>
<li><a class="register" href="http://pacb.com/devnet/files/software/smrtanalysis/1.4/smrtanalysis-1.4-ubuntu-10.04.tgz">smrtanalysis-1.4-ubuntu-10.04.tgz</a> <a href="http://pacb.com/devnet/files/software/smrtanalysis/1.4/smrtanalysis-1.4-ubuntu-10.04.tgz.md5">md5</a></li>
</ul>
<h4>Release Documentation</h4>
<ul>
<li><a href="http://pacb.com/Tutorials/SMRT_Analysis_v14/story.html">SMRT Analysis Overview</a> (<a href="http://www.pacificbiosciences.com/Tutorials/SMRT_Analysis_v14/story_html5.html">iOS version</a>)</li>
<li><a href="http://pacb.com/devnet/files/software/smrtanalysis/1.4/doc/SMRT Analysis Release Notes (v1.4.0).pdf">SMRT Analysis Release Notes (v1.4.0).pdf</a></li>
<li><a href="http://pacb.com/devnet/files/software/smrtanalysis/1.4/doc/SMRT Analysis Software Installation (v1.4.0).pdf">SMRT Analysis Software Installation (v1.4.0).pdf</a></li>
<li><a href="http://pacb.com/devnet/files/software/smrtanalysis/1.4/doc/Running SMRT Analysis on Amazon.pdf">Running SMRT Analysis on Amazon.pdf</a></li>
</ul>
<h4>User Documentation</h4>
<ul>
<li><a href="http://pacb.com/devnet/files/software/smrtanalysis/1.3.1/doc/Software Getting Started Guide.pdf">Software Getting Started Guide.pdf</a></li>
<li><a href="http://pacb.com/devnet/files/software/smrtanalysis/1.4/doc/smrtportal/Help/SMRT_Portal.htm">SMRT Portal Help</a></li>
<li><a href="http://pacb.com/devnet/files/software/smrtanalysis/1.4/doc/smrtview/Help/SMRT_View.htm">SMRT View Help</a></li>
<li><a href="http://pacb.com/devnet/files/software/smrtanalysis/1.4/doc/SMRT Pipe Reference Guide.pdf">SMRT Pipe Reference Guide.pdf</a></li>
</ul>
<!--<h4>Developer Documentation</h4>
<ul>
<li><a href="http://pacb.com/devnet/files/software/smrtanalysis/1.4/doc/Secondary Analysis Web Services API.pdf">Secondary Analysis Web Services API.pdf</a></li>
<li><a href="http://pacb.com/devnet/files/software/instrument-web-services/1.4/Instrument Control Web Services API.pdf">Instrument Control Web Services API.pdf</a></li>
</ul>-->
</details>
</div>
<details>
<summary><span>Previous Releases</span></summary>
<details>
<summary><span>v1.3.3</span></summary>
<h4>Downloads</h4>
<ul>
<li><a class="register" href="http://pacb.com/devnet/files/software/smrtanalysis/1.3.3/smrtanalysis-1.3.3-centos56.tgz">smrtanalysis-1.3.3-centos56.tgz</a> <a href="http://pacb.com/devnet/files/software/smrtanalysis/1.3.3/smrtanalysis-1.3.3-centos56.tgz.md5">md5</a></li>
<li><a class="register" href="http://pacb.com/devnet/files/software/smrtanalysis/1.3.3/smrtanalysis-1.3.3-ubuntu.tgz">smrtanalysis-1.3.3-ubuntu.tgz</a> <a href="http://pacb.com/devnet/files/software/smrtanalysis/1.3.3/smrtanalysis-1.3.3-ubuntu.tgz.md5">md5</a></li>
</ul>
<h4>Release Documentation</h4>
<ul>
<li><a href="http://pacb.com/devnet/files/software/smrtanalysis/1.3.3/doc/SMRT Analysis Release Notes (v1.3.3).pdf">SMRT Analysis Release Notes (v1.3.3).pdf</a></li>
<li><a href="http://pacb.com/devnet/files/software/smrtanalysis/1.3.3/doc/SMRT Analysis Software Installation (v1.3.3).pdf">SMRT Analysis Software Installation (v1.3.3).pdf</a></li>
<li><a href="http://pacb.com/devnet/files/software/smrtanalysis/1.3.3/doc/Working with the AMI (v1.3.3).pdf">Working with the AMI (v1.3.3).pdf</a></li>
</ul>
<h4>User Documentation</h4>
<ul>
<li><a href="http://pacb.com/Tutorials/Experimental_Design_for_De_Novo_Assembly/story_html5.html">Experimental Design for <i>De Novo</i> Assembly</a></li>
<li><a href="http://pacb.com/devnet/files/software/smrtanalysis/1.3.3/doc/SMRT Pipe Reference Guide.pdf">SMRT Pipe Reference Guide.pdf</a></li>
<li><a href="http://pacb.com/devnet/files/software/smrtanalysis/1.3.3/doc/SMRT View Guide.pdf">SMRT View Guide.pdf</a></li>
</ul>
<!--<h4>Developer Documentation</h4>
<ul>
<li><a href="http://pacb.com/devnet/files/software/smrtanalysis/1.3.1/doc/Secondary Analysis Web Services API.pdf">Secondary Analysis Web Services API.pdf</a></li>
<li><a href="http://pacb.com/devnet/files/software/instrument-web-services/1.3.1/Instrument Control Web Services API.pdf">Instrument Control Web Services API.pdf</a></li>
</ul>-->
</details>
<details class="pb-release">
<summary><span>v1.3.1</span></summary>
<h4>Downloads</h4>
<ul>
<li><a class="register" href="http://pacb.com/devnet/files/software/smrtanalysis/1.3.1/smrtanalysis-1.3.1-centos56.tgz">smrtanalysis-1.3.1-centos.tgz</a> <a href="http://pacb.com/devnet/files/software/smrtanalysis/1.3.1/smrtanalysis-1.3.1-centos.tgz.md5">md5</a></li>
<li><a class="register" href="http://pacb.com/devnet/files/software/smrtanalysis/1.3.1/smrtanalysis-1.3.1-ubuntu.tgz">smrtanalysis-1.3.1-ubuntu.tgz</a> <a href="http://pacb.com/devnet/files/software/smrtanalysis/1.3.1/smrtanalysis-1.3.1-ubuntu.tgz.md5">md5</a></li>
</ul>
<h4>Release Documentation</h4>
<ul>
<li><a href="http://pacb.com/devnet/files/software/smrtanalysis/1.3.1/doc/SMRT Analysis Release Notes (v1.3.1).pdf">SMRT Analysis Release Notes (v1.3.1).pdf</a></li>
<li><a href="http://pacb.com/devnet/files/software/smrtanalysis/1.3.1/doc/SMRT Analysis Software Installation (v1.3.1).pdf">SMRT Analysis Software Installation (v1.3.1).pdf</a></li>
</ul>
<h4>User Documentation</h4>
<ul>
<li><a href="http://pacb.com/devnet/files/software/smrtanalysis/1.3.1/doc/SMRT Pipe Reference Guide.pdf">SMRT Pipe Reference Guide.pdf</a></li>
<li><a href="http://pacb.com/devnet/files/software/smrtanalysis/1.3.1/doc/SMRT View Guide.pdf">SMRT View Guide.pdf</a></li>
</ul>
<!--<h4>Developer Documentation</h4>
<ul>
<li><a href="http://pacb.com/devnet/files/software/smrtanalysis/1.3.1/doc/Secondary Analysis Web Services API.pdf">Secondary Analysis Web Services API.pdf</a></li>
<li><a href="http://pacb.com/devnet/files/software/instrument-web-services/1.3.1/Instrument Control Web Services API.pdf">Instrument Control Web Services API.pdf</a></li>
</ul>-->
</details>
</details>
</section>
<section id="pb-community">
<div class="section-head">
<h2>Community</h2>
<p>Share, learn about, discover and explore software and data for SMRT Sequencing.</p>
</div>
<div class="section-body">
<h3><a target="github" href="https://github.com/PacificBiosciences/SMRT-Analysis/wiki">Wiki</a></h3>
<ul>
<li><a target="github" href="https://github.com/PacificBiosciences/Bioinformatics-Training/wiki/">Bioinformatics Training</a></li>
<li><a target="github" href="https://github.com/PacificBiosciences/SMRT-Analysis/wiki/Troubleshooting">Troubleshooting</a></li>
</ul>
<h3><a target="github" href="https://github.com/PacificBiosciences/DevNet/wiki/Datasets">Datasets</a>, <a target="github" href="https://github.com/PacificBiosciences/DevNet/wiki/How-To's-and-Examples">Examples</a> and <a target="pacb" href="http://pacb.com/news_and_events/publications/">Publications</a></h3>
<h3>Discussion:
<a target="github" href="https://github.com/PacificBiosciences/SMRT-Analysis/issues">Issue Tracker</a>,
<a target="seqanswers" href="http://seqanswers.com/forums/tags.php?tag=pacbio">SEQanswers</a>
</h3>
<h3><a href="http://blog.pacificbiosciences.com">Blog</a></h3>
<h3>Compatible Software:
<a target="github" href="https://github.com/PacificBiosciences/DevNet/wiki/Compatible-Software">Open Source</a>,
<a target="pacb" href="http://pacb.com/products/partner_products/">Commercial</a>
</h3>
<h3>Files and APIs</h3>
<ul>
<li>File formats:
<a href="http://pacb.com/devnet/files/software/primary-analysis/1.2.2/doc/Base, Pulse, and Trace File Reference Guide.pdf">base file</a>,
<a href="http://pacb.com/devnet/files/software/smrtpipe/1.2.1/doc/cmp.h5 Reference Guide.pdf">alignment</a>,
<a href="http://pacb.com/devnet/files/software/primary-analysis/1.2.1/doc/Metadata Output Guide.pdf">metadata</a>,
<a href="http://pacb.com/devnet/files/software/primary-analysis/1.2.1/doc/Statistics Output Guide.pdf">statistics</a>,
<a href="http://pacb.com/devnet/files/software/instrument-web-services/1.2.1/doc/Run Definition File Format.pdf">run definition</a>,
<a href="http://pacb.com/devnet/files/consumables/barcodes/1.2.1/Consumables Barcode Layout Guide.pdf">barcodes</a>
</li>
<li>File APIs:
<a target="github" href="https://github.com/PacificBiosciences/pbh5tools">Python</a>, <a target="github" href="https://github.com/PacificBiosciences/R-pbh5">R</a>,
<a href="http://pacb.com/devnet/files/software/hdf-java-api/1.2.2.1/com.pacbio.hdf5api-1.2.2.1.zip">Java</a> (<a href="http://pacb.com/devnet/files/software/hdf-java-api/1.2.2.1/HDF5 Java API User Guide.pdf">user guide</a>)
</li>
<li>Web services:
<a href="http://pacb.com/devnet/files/software/smrtanalysis/1.4/doc/Secondary Analysis Web Services API.pdf">secondary analysis</a>,
<a href="http://pacb.com/devnet/files/software/instrument-web-services/1.3.1/Instrument Control Web Services API.pdf">instrument</a>
</li>
</ul>
</div>
</section>
</div>
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<p><a href="Terms_of_Use.txt">Terms of Use</a> | <a href="MAILTO:devnet@pacificbiosciences.com">Contact Us</a></p>
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