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  • Committer: Package Import Robot
  • Author(s): Andreas Tille
  • Date: 2013-06-17 18:28:26 UTC
  • mfrom: (9.1.2 sid)
  • Revision ID: package-import@ubuntu.com-20130617182826-376az5ad080a0sfe
Tags: 1.7.0+dfsg-1
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<div>
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                        <h1> What is QIIME? <img src="images/spacer_dots.png" alt="..."></h1>
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                        <p>
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                                QIIME (pronounced "chime") stands for Quantitative Insights Into
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Microbial Ecology. QIIME is an open source software package for
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comparison and analysis of microbial communities, primarily based on
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high-throughput amplicon sequencing data (such as SSU rRNA) generated
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on a variety of platforms, but also supporting analysis of other types
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of data (such as shotgun metagenomic data). QIIME takes users from
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their raw sequencing output through initial analyses such as OTU
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picking, taxonomic assignment, and construction of phylogenetic trees
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from representative sequences of OTUs, and through downstream
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statistical analysis, visualization, and production of
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publication-quality graphics. QIIME has been applied to single studies
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based on billions of sequences from thousands of samples.
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                        <h2> News </h2>
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                        <h2> Latest forum posts </h2>
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                        <h2> Most recent articles citing QIIME </h2>
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                        <h2>Citing QIIME<a class="headerlink" href="#citing-qiime" title="Permalink to this headline"></a></h2>
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                        <p>If you use QIIME for any published research, please include the following citation:</p>
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                                        <p><strong>QIIME allows analysis of high-throughput community sequencing data</strong>
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                                        <p>J Gregory Caporaso, Justin Kuczynski, Jesse Stombaugh, Kyle Bittinger, Frederic D Bushman, Elizabeth K Costello, Noah Fierer, Antonio Gonzalez Pena, Julia K Goodrich, Jeffrey I Gordon, Gavin A Huttley, Scott T Kelley, Dan Knights, Jeremy E Koenig, Ruth E Ley, Catherine A Lozupone, Daniel McDonald, Brian D Muegge, Meg Pirrung, Jens Reeder, Joel R Sevinsky, Peter J Turnbaugh, William A Walters, Jeremy Widmann, Tanya Yatsunenko, Jesse Zaneveld and Rob Knight; Nature Methods, 2010; doi:10.1038/nmeth.f.303
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                        </blockquote>
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                        <p>You can find the <a class="reference external" href="http://www.nature.com/nmeth/journal/vaop/ncurrent/full/nmeth.f.303.html">QIIME paper here</a>, and the data presented in this paper can be found 
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                                <a class="reference external" href="http://bmf.colorado.edu/QIIME/QIIME_NM_2010.tgz">here</a>.
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