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<li class="navelem"><a class="el" href="namespaceOpenMS.html">OpenMS</a></li><li class="navelem"><a class="el" href="classOpenMS_1_1SvmTheoreticalSpectrumGeneratorSet.html">SvmTheoreticalSpectrumGeneratorSet</a></li> </ul>
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<div class="title">SvmTheoreticalSpectrumGeneratorSet Class Reference<div class="ingroups"><a class="el" href="group__Chemistry.html">Chemistry</a></div></div> </div>
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<p>Loads <a class="el" href="classOpenMS_1_1SvmTheoreticalSpectrumGenerator.html" title="Simulates ms2 spectra with support vector machines. ">SvmTheoreticalSpectrumGenerator</a> instances for different charges.
<a href="classOpenMS_1_1SvmTheoreticalSpectrumGeneratorSet.html#details">More...</a></p>
<p><code>#include <<a class="el" href="SvmTheoreticalSpectrumGeneratorSet_8h_source.html">OpenMS/CHEMISTRY/SvmTheoreticalSpectrumGeneratorSet.h</a>></code></p>
<table class="memberdecls">
<tr class="heading"><td colspan="2"><h2 class="groupheader"><a name="pub-methods"></a>
Public Member Functions</h2></td></tr>
<tr class="memitem:aa49f9091bbcf1f989add1ed0e8d606a4"><td class="memItemLeft" align="right" valign="top"><a class="el" href="classOpenMS_1_1SvmTheoreticalSpectrumGeneratorSet.html">SvmTheoreticalSpectrumGeneratorSet</a> & </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1SvmTheoreticalSpectrumGeneratorSet.html#aa49f9091bbcf1f989add1ed0e8d606a4">operator=</a> (const <a class="el" href="classOpenMS_1_1SvmTheoreticalSpectrumGeneratorSet.html">SvmTheoreticalSpectrumGeneratorSet</a> &tsg)</td></tr>
<tr class="memdesc:aa49f9091bbcf1f989add1ed0e8d606a4"><td class="mdescLeft"> </td><td class="mdescRight">Assignment operator. <a href="#aa49f9091bbcf1f989add1ed0e8d606a4">More...</a><br/></td></tr>
<tr class="separator:aa49f9091bbcf1f989add1ed0e8d606a4"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a5c8a302c628f40855e96653849c430e7"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1SvmTheoreticalSpectrumGeneratorSet.html#a5c8a302c628f40855e96653849c430e7">simulate</a> (<a class="el" href="group__Kernel.html#gae09df17325d781f23b1486a2db006e0d">RichPeakSpectrum</a> &spectrum, const <a class="el" href="classOpenMS_1_1AASequence.html">AASequence</a> &peptide, const gsl_rng *rng, <a class="el" href="group__Concept.html#gaf9ecec2d692138fab9167164a457cbd4">Size</a> precursor_charge)</td></tr>
<tr class="memdesc:a5c8a302c628f40855e96653849c430e7"><td class="mdescLeft"> </td><td class="mdescRight">Generate the MS/MS according to the model for the given precursor_charge. <a href="#a5c8a302c628f40855e96653849c430e7">More...</a><br/></td></tr>
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<tr class="memitem:a32fa3ddac343965c7fc4d7d95e9315ed"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1SvmTheoreticalSpectrumGeneratorSet.html#a32fa3ddac343965c7fc4d7d95e9315ed">load</a> (<a class="el" href="classOpenMS_1_1String.html">String</a>)</td></tr>
<tr class="memdesc:a32fa3ddac343965c7fc4d7d95e9315ed"><td class="mdescLeft"> </td><td class="mdescRight">Load a trained Svm and Prob. models. <a href="#a32fa3ddac343965c7fc4d7d95e9315ed">More...</a><br/></td></tr>
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<tr class="memitem:a4967829a2f2eb38a784897772117ed58"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1SvmTheoreticalSpectrumGeneratorSet.html#a4967829a2f2eb38a784897772117ed58">getSupportedCharges</a> (std::set< <a class="el" href="group__Concept.html#gaf9ecec2d692138fab9167164a457cbd4">Size</a> > &charges)</td></tr>
<tr class="memdesc:a4967829a2f2eb38a784897772117ed58"><td class="mdescLeft"> </td><td class="mdescRight">Return precursor charges for which a model is contained in the set. <a href="#a4967829a2f2eb38a784897772117ed58">More...</a><br/></td></tr>
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<tr class="memitem:a28b846ed3327e34dbf7f03be273b4e3d"><td class="memItemLeft" align="right" valign="top"><a class="el" href="classOpenMS_1_1SvmTheoreticalSpectrumGenerator.html">SvmTheoreticalSpectrumGenerator</a> & </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1SvmTheoreticalSpectrumGeneratorSet.html#a28b846ed3327e34dbf7f03be273b4e3d">getSvmModel</a> (<a class="el" href="group__Concept.html#gaf9ecec2d692138fab9167164a457cbd4">Size</a>)</td></tr>
<tr class="memdesc:a28b846ed3327e34dbf7f03be273b4e3d"><td class="mdescLeft"> </td><td class="mdescRight">return a modifiable reference to the SVM model with given charge. If charge is not supported throw exception <a href="#a28b846ed3327e34dbf7f03be273b4e3d">More...</a><br/></td></tr>
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<tr><td colspan="2"><div class="groupHeader">Constructors and Destructors</div></td></tr>
<tr class="memitem:a07d31cc173af2e894d620f39ef6000fc"><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1SvmTheoreticalSpectrumGeneratorSet.html#a07d31cc173af2e894d620f39ef6000fc">SvmTheoreticalSpectrumGeneratorSet</a> ()</td></tr>
<tr class="memdesc:a07d31cc173af2e894d620f39ef6000fc"><td class="mdescLeft"> </td><td class="mdescRight">Default constructor. <a href="#a07d31cc173af2e894d620f39ef6000fc">More...</a><br/></td></tr>
<tr class="separator:a07d31cc173af2e894d620f39ef6000fc"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a29d9f15cfeb96288300a0f58a1d818a3"><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1SvmTheoreticalSpectrumGeneratorSet.html#a29d9f15cfeb96288300a0f58a1d818a3">SvmTheoreticalSpectrumGeneratorSet</a> (const <a class="el" href="classOpenMS_1_1SvmTheoreticalSpectrumGeneratorSet.html">SvmTheoreticalSpectrumGeneratorSet</a> &source)</td></tr>
<tr class="memdesc:a29d9f15cfeb96288300a0f58a1d818a3"><td class="mdescLeft"> </td><td class="mdescRight">Copy constructor. <a href="#a29d9f15cfeb96288300a0f58a1d818a3">More...</a><br/></td></tr>
<tr class="separator:a29d9f15cfeb96288300a0f58a1d818a3"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:ab0c9aec2aff8d88dcefa095ec75ef947"><td class="memItemLeft" align="right" valign="top">virtual </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1SvmTheoreticalSpectrumGeneratorSet.html#ab0c9aec2aff8d88dcefa095ec75ef947">~SvmTheoreticalSpectrumGeneratorSet</a> ()</td></tr>
<tr class="memdesc:ab0c9aec2aff8d88dcefa095ec75ef947"><td class="mdescLeft"> </td><td class="mdescRight">Destructor. <a href="#ab0c9aec2aff8d88dcefa095ec75ef947">More...</a><br/></td></tr>
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</table><table class="memberdecls">
<tr class="heading"><td colspan="2"><h2 class="groupheader"><a name="pro-attribs"></a>
Protected Attributes</h2></td></tr>
<tr class="memitem:a60d537cc4998816bcdd12fd450dc80d2"><td class="memItemLeft" align="right" valign="top">std::map< <a class="el" href="group__Concept.html#gaf9ecec2d692138fab9167164a457cbd4">Size</a>, <br class="typebreak"/>
<a class="el" href="classOpenMS_1_1SvmTheoreticalSpectrumGenerator.html">SvmTheoreticalSpectrumGenerator</a> > </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1SvmTheoreticalSpectrumGeneratorSet.html#a60d537cc4998816bcdd12fd450dc80d2">simulators_</a></td></tr>
<tr class="separator:a60d537cc4998816bcdd12fd450dc80d2"><td class="memSeparator" colspan="2"> </td></tr>
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<a name="details" id="details"></a><h2 class="groupheader">Detailed Description</h2>
<div class="textblock"><p>Loads <a class="el" href="classOpenMS_1_1SvmTheoreticalSpectrumGenerator.html" title="Simulates ms2 spectra with support vector machines. ">SvmTheoreticalSpectrumGenerator</a> instances for different charges. </p>
<p>The input file contains pairs of charge and svm models separated by a ":" (see share/OpenMS/examples/simulation/SvmModelSet.model)</p>
<p>Actually only a test model is shipped with <a class="el" href="namespaceOpenMS.html" title="Main OpenMS namespace. ">OpenMS</a>.<br/>
Please find trained models at: <a href="http://sourceforge.net/projects/open-ms/files/Supplementary/Simulation/">http://sourceforge.net/projects/open-ms/files/Supplementary/Simulation/</a>. </p>
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<p>Default constructor. </p>
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<td class="memname"><a class="el" href="classOpenMS_1_1SvmTheoreticalSpectrumGeneratorSet.html">SvmTheoreticalSpectrumGeneratorSet</a> </td>
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<td class="paramtype">const <a class="el" href="classOpenMS_1_1SvmTheoreticalSpectrumGeneratorSet.html">SvmTheoreticalSpectrumGeneratorSet</a> & </td>
<td class="paramname"><em>source</em></td><td>)</td>
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<p>Copy constructor. </p>
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<td class="memname">virtual ~<a class="el" href="classOpenMS_1_1SvmTheoreticalSpectrumGeneratorSet.html">SvmTheoreticalSpectrumGeneratorSet</a> </td>
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<p>Destructor. </p>
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<h2 class="groupheader">Member Function Documentation</h2>
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<td class="memname">void getSupportedCharges </td>
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<td class="paramname"><em>charges</em></td><td>)</td>
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<p>Return precursor charges for which a model is contained in the set. </p>
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<td class="memname"><a class="el" href="classOpenMS_1_1SvmTheoreticalSpectrumGenerator.html">SvmTheoreticalSpectrumGenerator</a>& getSvmModel </td>
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<p>return a modifiable reference to the SVM model with given charge. If charge is not supported throw exception </p>
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<td class="memname">void load </td>
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<p>Load a trained Svm and Prob. models. </p>
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<td class="memname"><a class="el" href="classOpenMS_1_1SvmTheoreticalSpectrumGeneratorSet.html">SvmTheoreticalSpectrumGeneratorSet</a>& operator= </td>
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<td class="paramtype">const <a class="el" href="classOpenMS_1_1SvmTheoreticalSpectrumGeneratorSet.html">SvmTheoreticalSpectrumGeneratorSet</a> & </td>
<td class="paramname"><em>tsg</em></td><td>)</td>
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<p>Assignment operator. </p>
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<td class="memname">void simulate </td>
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<td class="paramtype"><a class="el" href="group__Kernel.html#gae09df17325d781f23b1486a2db006e0d">RichPeakSpectrum</a> & </td>
<td class="paramname"><em>spectrum</em>, </td>
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<td class="paramtype">const <a class="el" href="classOpenMS_1_1AASequence.html">AASequence</a> & </td>
<td class="paramname"><em>peptide</em>, </td>
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<td class="paramtype">const gsl_rng * </td>
<td class="paramname"><em>rng</em>, </td>
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<td class="paramname"><em>precursor_charge</em> </td>
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<p>Generate the MS/MS according to the model for the given precursor_charge. </p>
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<h2 class="groupheader">Member Data Documentation</h2>
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<td class="memname">std::map<<a class="el" href="group__Concept.html#gaf9ecec2d692138fab9167164a457cbd4">Size</a>, <a class="el" href="classOpenMS_1_1SvmTheoreticalSpectrumGenerator.html">SvmTheoreticalSpectrumGenerator</a>> simulators_</td>
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<TD><font color="#c0c0c0">OpenMS / TOPP release 1.11.1</font></TD>
<TD align="right"><font color="#c0c0c0">Documentation generated on Thu Nov 14 2013 11:19:28 using doxygen 1.8.5</font></TD>
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