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<p>[experimental class] given a peptide quantitation, infer corresponding protein quantities
<a href="classOpenMS_1_1ProteinInference.html#details">More...</a></p>
<p><code>#include <<a class="el" href="ProteinInference_8h_source.html">OpenMS/ANALYSIS/QUANTITATION/ProteinInference.h</a>></code></p>
<table class="memberdecls">
<tr class="heading"><td colspan="2"><h2 class="groupheader"><a name="pub-types"></a>
Public Types</h2></td></tr>
<tr class="memitem:a75368a6367469257c1a109f862e28a0d"><td class="memItemLeft" align="right" valign="top">typedef <a class="el" href="classOpenMS_1_1Peak2D.html#a4a8c5b2adc05e9ff96a007385bfe9b47">Peak2D::IntensityType</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1ProteinInference.html#a75368a6367469257c1a109f862e28a0d">IntensityType</a></td></tr>
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Public Member Functions</h2></td></tr>
<tr class="memitem:a560381aa77e7bd3e336c11d731f1eee3"><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1ProteinInference.html#a560381aa77e7bd3e336c11d731f1eee3">ProteinInference</a> ()</td></tr>
<tr class="memdesc:a560381aa77e7bd3e336c11d731f1eee3"><td class="mdescLeft"> </td><td class="mdescRight">Constructor. <a href="#a560381aa77e7bd3e336c11d731f1eee3">More...</a><br/></td></tr>
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<tr class="memitem:a37b12ca5c0c3478f83d7be8c39aafe4b"><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1ProteinInference.html#a37b12ca5c0c3478f83d7be8c39aafe4b">ProteinInference</a> (const <a class="el" href="classOpenMS_1_1ProteinInference.html">ProteinInference</a> &cp)</td></tr>
<tr class="memdesc:a37b12ca5c0c3478f83d7be8c39aafe4b"><td class="mdescLeft"> </td><td class="mdescRight">copy constructor <a href="#a37b12ca5c0c3478f83d7be8c39aafe4b">More...</a><br/></td></tr>
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<tr class="memitem:a0d8ba8314fcec19eb20389399bb5abc6"><td class="memItemLeft" align="right" valign="top"><a class="el" href="classOpenMS_1_1ProteinInference.html">ProteinInference</a> & </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1ProteinInference.html#a0d8ba8314fcec19eb20389399bb5abc6">operator=</a> (const <a class="el" href="classOpenMS_1_1ProteinInference.html">ProteinInference</a> &rhs)</td></tr>
<tr class="memdesc:a0d8ba8314fcec19eb20389399bb5abc6"><td class="mdescLeft"> </td><td class="mdescRight">assignment operator <a href="#a0d8ba8314fcec19eb20389399bb5abc6">More...</a><br/></td></tr>
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<tr class="memitem:a3a20fb7506e69406aae2f243a9d5edaa"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1ProteinInference.html#a3a20fb7506e69406aae2f243a9d5edaa">infer</a> (<a class="el" href="classOpenMS_1_1ConsensusMap.html">ConsensusMap</a> &consensus_map, const <a class="el" href="group__Concept.html#gaba0996d26f7be2572973245b51852757">UInt</a> reference_map)</td></tr>
<tr class="memdesc:a3a20fb7506e69406aae2f243a9d5edaa"><td class="mdescLeft"> </td><td class="mdescRight">given a peptide quantitation, infer corresponding protein quantities <a href="#a3a20fb7506e69406aae2f243a9d5edaa">More...</a><br/></td></tr>
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Protected Member Functions</h2></td></tr>
<tr class="memitem:ab2903dbcf2209981d0441c7f8b35c827"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1ProteinInference.html#ab2903dbcf2209981d0441c7f8b35c827">infer_</a> (<a class="el" href="classOpenMS_1_1ConsensusMap.html">ConsensusMap</a> &consensus_map, const size_t protein_idenfication_index, const <a class="el" href="group__Concept.html#gaba0996d26f7be2572973245b51852757">UInt</a> reference_map)</td></tr>
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<tr class="memitem:abe2ebe322f4dd103143bf4edecf33ab1"><td class="memItemLeft" align="right" valign="top">bool </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1ProteinInference.html#abe2ebe322f4dd103143bf4edecf33ab1">sortByUnique_</a> (std::vector< <a class="el" href="classOpenMS_1_1PeptideHit.html">PeptideHit</a> > &peptide_hits_local, const bool is_higher_score_better)</td></tr>
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<a name="details" id="details"></a><h2 class="groupheader">Detailed Description</h2>
<div class="textblock"><p>[experimental class] given a peptide quantitation, infer corresponding protein quantities </p>
<p>Infers protein ratios from peptide ratios (currently using unique peptides only). Use the <a class="el" href="classOpenMS_1_1IDMapper.html" title="Annotates an MSExperiment, FeatureMap or ConsensusMap with peptide identifications. ">IDMapper</a> class to add protein and peptide information to a quantitative <a class="el" href="classOpenMS_1_1ConsensusMap.html" title="A container for consensus elements. ">ConsensusMap</a> prior to this step. </p>
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<td class="memname">typedef <a class="el" href="classOpenMS_1_1Peak2D.html#a4a8c5b2adc05e9ff96a007385bfe9b47">Peak2D::IntensityType</a> <a class="el" href="classOpenMS_1_1ProteinInference.html#a75368a6367469257c1a109f862e28a0d">IntensityType</a></td>
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<h2 class="groupheader">Constructor & Destructor Documentation</h2>
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<td class="memname"><a class="el" href="classOpenMS_1_1ProteinInference.html">ProteinInference</a> </td>
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<p>Constructor. </p>
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<td class="memname"><a class="el" href="classOpenMS_1_1ProteinInference.html">ProteinInference</a> </td>
<td>(</td>
<td class="paramtype">const <a class="el" href="classOpenMS_1_1ProteinInference.html">ProteinInference</a> & </td>
<td class="paramname"><em>cp</em></td><td>)</td>
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<p>copy constructor </p>
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<h2 class="groupheader">Member Function Documentation</h2>
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<td class="memname">void infer </td>
<td>(</td>
<td class="paramtype"><a class="el" href="classOpenMS_1_1ConsensusMap.html">ConsensusMap</a> & </td>
<td class="paramname"><em>consensus_map</em>, </td>
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<td class="paramtype">const <a class="el" href="group__Concept.html#gaba0996d26f7be2572973245b51852757">UInt</a> </td>
<td class="paramname"><em>reference_map</em> </td>
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<p>given a peptide quantitation, infer corresponding protein quantities </p>
<p>Infers protein ratios from peptide ratios (currently using unique peptides only). Use the <a class="el" href="classOpenMS_1_1IDMapper.html" title="Annotates an MSExperiment, FeatureMap or ConsensusMap with peptide identifications. ">IDMapper</a> class to add protein and peptide information to a quantitative <a class="el" href="classOpenMS_1_1ConsensusMap.html" title="A container for consensus elements. ">ConsensusMap</a> prior to this step.</p>
<dl class="params"><dt>Parameters</dt><dd>
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<tr><td class="paramname">consensus_map</td><td>Peptide quantitation with ProteinIdentifications attached, where Protein quantitation will be attached </td></tr>
<tr><td class="paramname">reference_map</td><td>Index of (iTRAQ) reference channel within the consensus map</td></tr>
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<dl class="exception"><dt>Exceptions</dt><dd>
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<tr><td class="paramname"><a class="el" href="classOpenMS_1_1Exception_1_1MissingInformation.html" title="Not all required information provided. ">Exception::MissingInformation</a></td><td>if Protein/PeptideIdentifications are missing </td></tr>
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<td class="memname">void infer_ </td>
<td>(</td>
<td class="paramtype"><a class="el" href="classOpenMS_1_1ConsensusMap.html">ConsensusMap</a> & </td>
<td class="paramname"><em>consensus_map</em>, </td>
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<td class="paramtype">const size_t </td>
<td class="paramname"><em>protein_idenfication_index</em>, </td>
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<td class="paramtype">const <a class="el" href="group__Concept.html#gaba0996d26f7be2572973245b51852757">UInt</a> </td>
<td class="paramname"><em>reference_map</em> </td>
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<td class="memname"><a class="el" href="classOpenMS_1_1ProteinInference.html">ProteinInference</a>& operator= </td>
<td>(</td>
<td class="paramtype">const <a class="el" href="classOpenMS_1_1ProteinInference.html">ProteinInference</a> & </td>
<td class="paramname"><em>rhs</em></td><td>)</td>
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<p>assignment operator </p>
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<td class="memname">bool sortByUnique_ </td>
<td>(</td>
<td class="paramtype">std::vector< <a class="el" href="classOpenMS_1_1PeptideHit.html">PeptideHit</a> > & </td>
<td class="paramname"><em>peptide_hits_local</em>, </td>
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<td class="paramtype">const bool </td>
<td class="paramname"><em>is_higher_score_better</em> </td>
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<td>)</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 11:19:27 using doxygen 1.8.5</font></TD>
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