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  <title>xcms</title>
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  <div class="PackageDetail">
   <h1>xcms</h1>
   <h2>LC/MS and GC/MS Data Analysis</h2>
   <p class="description">Framework for processing and visualization of
chromatographically separated and single-spectra mass spectral
data. Imports from AIA/ANDI NetCDF, mzXML, and mzData files.
Preprocesses data for high-throughput, untargeted analyte
profiling.</p>
   <table class="author_info">
    <tr>
     <td>Author</td>
     <td>Colin A. Smith , Ralf Tautenhahn
</td>
    </tr>
    <tr>
     <td>Maintainer</td>
     <td>Colin A. Smith</td>
    </tr>
   </table>
   <div class="installInstruct">
    <p class="install">To install this package, start R and enter:</p>
    <pre>    source(&quot;http://bioconductor.org/biocLite.R&quot;)
    biocLite(&quot;xcms&quot;)</pre>
   </div>
   <table class="vigsAndDownloads">
    <tr>
     <td>
      <h3>Documentation</h3>
     </td>
     <td>
      <h3>Package Downloads</h3>
     </td>
    </tr>
    <tr>
     <td>
      <table class="vignette">
       <tr class="row_odd">
        <td>
         <a href="../vignettes/xcms/inst/doc/FlowChart.pdf">FlowChart.pdf</a>
        </td>
       </tr>
       <tr class="row_even">
        <td>
         <a href="../vignettes/xcms/inst/doc/xcmsDirect.pdf">Grouping FTICR-MS data with xcms</a>
        </td>
       </tr>
       <tr class="row_odd">
        <td>
         <a href="../vignettes/xcms/inst/doc/xcmsInstall.pdf">Installation Instructions for xcms</a>
        </td>
       </tr>
       <tr class="row_even">
        <td>
         <a href="../vignettes/xcms/inst/doc/xcmsMSn.pdf">Processing Tandem-MS and MS$^n$ data with with xcms</a>
        </td>
       </tr>
       <tr class="row_odd">
        <td>
         <a href="../vignettes/xcms/inst/doc/xcmsPreprocess.pdf">LC/MS Preprocessing and Analysis with xcms</a>
        </td>
       </tr>
       <tr class="row_even">
        <td>
         <a href="../manuals/xcms/man/xcms.pdf">Reference Manual</a>
        </td>
       </tr>
      </table>
     </td>
     <td>
      <table class="downloads">
       <tr class="row_odd">
        <th>Package source</th>
        <td>
         <a href="../src/contrib/xcms_1.14.1.tar.gz">xcms_1.14.1.tar.gz</a>
        </td>
       </tr>
       <tr class="row_even">
        <th>Windows binary</th>
        <td>
         <a href="../bin/windows/contrib/2.8/xcms_1.14.1.zip">xcms_1.14.1.zip</a>
        </td>
       </tr>
       <tr class="row_odd">
        <th>MacOS X 10.4 (Tiger) binary</th>
        <td>
         <a href="../
bin/macosx/universal/contrib/2.8/xcms_1.14.1.tgz">xcms_1.14.1.tgz</a>
        </td>
       </tr>
       <tr class="row_even">
        <th>MacOS X 10.5 (Leopard) binary</th>
        <td>
         <a href="../bin/macosx/leopard/contrib/2.8/xcms_1.14.1.tgz">xcms_1.14.1.tgz</a>
        </td>
       </tr>
       <tr class="row_odd">
        <th>Package Downloads Report</th>
        <td>
         <a href="http://bioconductor.org/packages/stats/bioc/xcms.html">Downloads Stats</a>
        </td>
       </tr>
      </table>
     </td>
    </tr>
   </table>
   <h3>Details</h3>
   <table class="details">
    <tr class="row_odd">
     <th>biocViews</th>
     <td>
      <div class="views">
       <a href="http://bioconductor.org/packages/2.3/Technology.html">Technology</a>
       , 
       <a href="http://bioconductor.org/packages/2.3/MassSpectrometry.html">MassSpectrometry</a>
      </div>
     </td>
    </tr>
    <tr class="row_even">
     <th>Depends</th>
     <td>
      <div class="packages">
       R
       , 
       methods
      </div>
     </td>
    </tr>
    <tr class="row_odd">
     <th>Imports</th>
     <td>
      <div class="packages"/>
     </td>
    </tr>
    <tr class="row_even">
     <th>Suggests</th>
     <td>
      <div class="packages">
       <a href="http://bioconductor.org/packages/2.4/data/experiment/html/faahKO.html">faahKO</a>
       , 
       <a href="http://bioconductor.org/packages/2.4/data/experiment/html/msdata.html">msdata</a>
       , 
       <a href="http://bioconductor.org/packages/2.4/bioc/html/multtest.html">multtest</a>
       , 
       ncdf
       , 
       rgl
       , 
       <a href="http://bioconductor.org/packages/2.4/bioc/html/MassSpecWavelet.html">MassSpecWavelet</a>
       , 
       <a href="http://bioconductor.org/packages/2.4/bioc/html/Rgraphviz.html">Rgraphviz</a>
      </div>
     </td>
    </tr>
    <tr class="row_odd">
     <th>System Requirements</th>
     <td>NetCDF, zlib</td>
    </tr>
    <tr class="row_even">
     <th>License</th>
     <td>GPL version 2 or newer</td>
    </tr>
    <tr class="row_odd">
     <th>URL</th>
     <td>
      <a href="http://metlin.scripps.edu/download/">http://metlin.scripps.edu/download/</a>
     </td>
    </tr>
    <tr class="row_even">
     <th>Depends On Me</th>
     <td>
      <div class="packages"/>
     </td>
    </tr>
    <tr class="row_odd">
     <th>Imports Me</th>
     <td>
      <div class="packages"/>
     </td>
    </tr>
    <tr class="row_even">
     <th>Suggests Me</th>
     <td>
      <div class="packages">
       <a href="http://bioconductor.org/packages/2.4/bioc/html/MassSpecWavelet.html">MassSpecWavelet</a>
      </div>
     </td>
    </tr>
    <tr class="row_odd">
     <th>Development History</th>
     <td>
      <a href="http://fgc.lsi.umich.edu/cgi-bin/blosxom2.cgi/xcms">Bioconductor Changelog</a>
     </td>
    </tr>
   </table>
  </div>
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