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<a href="FeatureGroupingAlgorithmUnlabeled_8h.html">Go to the documentation of this file.</a><div class="fragment"><div class="line"><a name="l00001"></a><span class="lineno">    1</span>&#160;<span class="comment">// --------------------------------------------------------------------------</span></div>
<div class="line"><a name="l00002"></a><span class="lineno">    2</span>&#160;<span class="comment">//                   OpenMS -- Open-Source Mass Spectrometry</span></div>
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<div class="line"><a name="l00035"></a><span class="lineno">   35</span>&#160;<span class="preprocessor">#ifndef OPENMS_ANALYSIS_MAPMATCHING_FEATUREGROUPINGALGORITHMUNLABELED_H</span></div>
<div class="line"><a name="l00036"></a><span class="lineno">   36</span>&#160;<span class="preprocessor"></span><span class="preprocessor">#define OPENMS_ANALYSIS_MAPMATCHING_FEATUREGROUPINGALGORITHMUNLABELED_H</span></div>
<div class="line"><a name="l00037"></a><span class="lineno">   37</span>&#160;<span class="preprocessor"></span></div>
<div class="line"><a name="l00038"></a><span class="lineno">   38</span>&#160;<span class="preprocessor">#include &lt;<a class="code" href="FeatureGroupingAlgorithm_8h.html">OpenMS/ANALYSIS/MAPMATCHING/FeatureGroupingAlgorithm.h</a>&gt;</span></div>
<div class="line"><a name="l00039"></a><span class="lineno">   39</span>&#160;</div>
<div class="line"><a name="l00040"></a><span class="lineno">   40</span>&#160;<span class="keyword">namespace </span>OpenMS</div>
<div class="line"><a name="l00041"></a><span class="lineno">   41</span>&#160;{</div>
<div class="line"><a name="l00060"></a><span class="lineno"><a class="line" href="classOpenMS_1_1FeatureGroupingAlgorithmUnlabeled.html">   60</a></span>&#160;  <span class="keyword">class </span>OPENMS_DLLAPI <a class="code" href="classOpenMS_1_1FeatureGroupingAlgorithmUnlabeled.html">FeatureGroupingAlgorithmUnlabeled</a> :</div>
<div class="line"><a name="l00061"></a><span class="lineno">   61</span>&#160;    <span class="keyword">public</span> <a class="code" href="classOpenMS_1_1FeatureGroupingAlgorithm.html">FeatureGroupingAlgorithm</a></div>
<div class="line"><a name="l00062"></a><span class="lineno">   62</span>&#160;  {</div>
<div class="line"><a name="l00063"></a><span class="lineno">   63</span>&#160;<span class="keyword">public</span>:</div>
<div class="line"><a name="l00065"></a><span class="lineno">   65</span>&#160;    <a class="code" href="classOpenMS_1_1FeatureGroupingAlgorithmUnlabeled.html">FeatureGroupingAlgorithmUnlabeled</a>();</div>
<div class="line"><a name="l00066"></a><span class="lineno">   66</span>&#160;</div>
<div class="line"><a name="l00068"></a><span class="lineno">   68</span>&#160;    <span class="keyword">virtual</span> ~<a class="code" href="classOpenMS_1_1FeatureGroupingAlgorithmUnlabeled.html">FeatureGroupingAlgorithmUnlabeled</a>();</div>
<div class="line"><a name="l00069"></a><span class="lineno">   69</span>&#160;</div>
<div class="line"><a name="l00077"></a><span class="lineno">   77</span>&#160;    <span class="keyword">template</span> &lt;<span class="keyword">typename</span> MapType&gt;</div>
<div class="line"><a name="l00078"></a><span class="lineno"><a class="line" href="classOpenMS_1_1FeatureGroupingAlgorithmUnlabeled.html#ad5052975ead111d198ea2503b0b2b17c">   78</a></span>&#160;    <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1FeatureGroupingAlgorithmUnlabeled.html#ad5052975ead111d198ea2503b0b2b17c">setReference</a>(<span class="keywordtype">int</span> map_id, <span class="keyword">const</span> MapType &amp; map)</div>
<div class="line"><a name="l00079"></a><span class="lineno">   79</span>&#160;    {</div>
<div class="line"><a name="l00080"></a><span class="lineno">   80</span>&#160;      <a class="code" href="classOpenMS_1_1ConsensusMap.html#addd3e7ab2d02c8ff9377da76cf2fcaff">ConsensusMap::convert</a>(map_id, map, pairfinder_input_[0]);</div>
<div class="line"><a name="l00081"></a><span class="lineno">   81</span>&#160;    }</div>
<div class="line"><a name="l00082"></a><span class="lineno">   82</span>&#160;</div>
<div class="line"><a name="l00086"></a><span class="lineno"><a class="line" href="classOpenMS_1_1FeatureGroupingAlgorithmUnlabeled.html#a0abafe557ddee49caa4a5a606936dda3">   86</a></span>&#160;    <a class="code" href="classOpenMS_1_1ConsensusMap.html">ConsensusMap</a> &amp; <a class="code" href="classOpenMS_1_1FeatureGroupingAlgorithmUnlabeled.html#a0abafe557ddee49caa4a5a606936dda3">getResultMap</a>()</div>
<div class="line"><a name="l00087"></a><span class="lineno">   87</span>&#160;    {</div>
<div class="line"><a name="l00088"></a><span class="lineno">   88</span>&#160;      <span class="keywordflow">return</span> pairfinder_input_[0];</div>
<div class="line"><a name="l00089"></a><span class="lineno">   89</span>&#160;    }</div>
<div class="line"><a name="l00090"></a><span class="lineno">   90</span>&#160;</div>
<div class="line"><a name="l00096"></a><span class="lineno">   96</span>&#160;    <span class="keyword">virtual</span> <span class="keywordtype">void</span> group(<span class="keyword">const</span> std::vector&lt;<a class="code" href="classOpenMS_1_1FeatureMap.html">FeatureMap&lt;&gt;</a> &gt; &amp; maps, <a class="code" href="classOpenMS_1_1ConsensusMap.html">ConsensusMap</a> &amp; out);</div>
<div class="line"><a name="l00097"></a><span class="lineno">   97</span>&#160;</div>
<div class="line"><a name="l00108"></a><span class="lineno">  108</span>&#160;    <span class="keywordtype">void</span> addToGroup(<span class="keywordtype">int</span> map_id, <span class="keyword">const</span> <a class="code" href="classOpenMS_1_1FeatureMap.html">FeatureMap&lt;&gt;</a> &amp; feature_map);</div>
<div class="line"><a name="l00109"></a><span class="lineno">  109</span>&#160;</div>
<div class="line"><a name="l00111"></a><span class="lineno"><a class="line" href="classOpenMS_1_1FeatureGroupingAlgorithmUnlabeled.html#ad2ac805e16aa3138b474571b71ed96fe">  111</a></span>&#160;    <span class="keyword">static</span> <a class="code" href="classOpenMS_1_1FeatureGroupingAlgorithm.html">FeatureGroupingAlgorithm</a> * <a class="code" href="classOpenMS_1_1FeatureGroupingAlgorithmUnlabeled.html#ad2ac805e16aa3138b474571b71ed96fe">create</a>()</div>
<div class="line"><a name="l00112"></a><span class="lineno">  112</span>&#160;    {</div>
<div class="line"><a name="l00113"></a><span class="lineno">  113</span>&#160;      <span class="keywordflow">return</span> <span class="keyword">new</span> <a class="code" href="classOpenMS_1_1FeatureGroupingAlgorithmUnlabeled.html">FeatureGroupingAlgorithmUnlabeled</a>();</div>
<div class="line"><a name="l00114"></a><span class="lineno">  114</span>&#160;    }</div>
<div class="line"><a name="l00115"></a><span class="lineno">  115</span>&#160;</div>
<div class="line"><a name="l00117"></a><span class="lineno"><a class="line" href="classOpenMS_1_1FeatureGroupingAlgorithmUnlabeled.html#a8d4600093afb26cff7d7db82a1837e9f">  117</a></span>&#160;    <span class="keyword">static</span> <a class="code" href="classOpenMS_1_1String.html">String</a> <a class="code" href="classOpenMS_1_1FeatureGroupingAlgorithmUnlabeled.html#a8d4600093afb26cff7d7db82a1837e9f">getProductName</a>()</div>
<div class="line"><a name="l00118"></a><span class="lineno">  118</span>&#160;    {</div>
<div class="line"><a name="l00119"></a><span class="lineno">  119</span>&#160;      <span class="keywordflow">return</span> <span class="stringliteral">&quot;unlabeled&quot;</span>;</div>
<div class="line"><a name="l00120"></a><span class="lineno">  120</span>&#160;    }</div>
<div class="line"><a name="l00121"></a><span class="lineno">  121</span>&#160;</div>
<div class="line"><a name="l00122"></a><span class="lineno">  122</span>&#160;<span class="keyword">private</span>:</div>
<div class="line"><a name="l00123"></a><span class="lineno">  123</span>&#160;</div>
<div class="line"><a name="l00124"></a><span class="lineno">  124</span>&#160;    <span class="comment">// This vector should always have 2 elements</span></div>
<div class="line"><a name="l00125"></a><span class="lineno">  125</span>&#160;    <span class="comment">// - the first element is the currently computed consensus map.</span></div>
<div class="line"><a name="l00126"></a><span class="lineno">  126</span>&#160;    <span class="comment">//   After initialization of the algorithm, it will consist of the reference</span></div>
<div class="line"><a name="l00127"></a><span class="lineno">  127</span>&#160;    <span class="comment">//   map alone, after adding all maps through addToGroup it will contain the</span></div>
<div class="line"><a name="l00128"></a><span class="lineno">  128</span>&#160;    <span class="comment">//   final result (e.g. the consensus result of all maps).</span></div>
<div class="line"><a name="l00129"></a><span class="lineno">  129</span>&#160;    <span class="comment">// - the second element is the map which was last added to the consensus map</span></div>
<div class="line"><a name="l00130"></a><span class="lineno"><a class="line" href="classOpenMS_1_1FeatureGroupingAlgorithmUnlabeled.html#a94f120ab601f41c978d296769610a333">  130</a></span>&#160;    std::vector&lt;ConsensusMap&gt; <a class="code" href="classOpenMS_1_1FeatureGroupingAlgorithmUnlabeled.html#a94f120ab601f41c978d296769610a333">pairfinder_input_</a>;</div>
<div class="line"><a name="l00131"></a><span class="lineno">  131</span>&#160;</div>
<div class="line"><a name="l00133"></a><span class="lineno">  133</span>&#160;    <a class="code" href="classOpenMS_1_1FeatureGroupingAlgorithmUnlabeled.html">FeatureGroupingAlgorithmUnlabeled</a>(<span class="keyword">const</span> <a class="code" href="classOpenMS_1_1FeatureGroupingAlgorithmUnlabeled.html">FeatureGroupingAlgorithmUnlabeled</a> &amp;);</div>
<div class="line"><a name="l00135"></a><span class="lineno">  135</span>&#160;    <a class="code" href="classOpenMS_1_1FeatureGroupingAlgorithmUnlabeled.html">FeatureGroupingAlgorithmUnlabeled</a> &amp; operator=(<span class="keyword">const</span> <a class="code" href="classOpenMS_1_1FeatureGroupingAlgorithmUnlabeled.html">FeatureGroupingAlgorithmUnlabeled</a> &amp;);</div>
<div class="line"><a name="l00136"></a><span class="lineno">  136</span>&#160;</div>
<div class="line"><a name="l00137"></a><span class="lineno">  137</span>&#160;  };</div>
<div class="line"><a name="l00138"></a><span class="lineno">  138</span>&#160;</div>
<div class="line"><a name="l00139"></a><span class="lineno">  139</span>&#160;} <span class="comment">// namespace OpenMS</span></div>
<div class="line"><a name="l00140"></a><span class="lineno">  140</span>&#160;</div>
<div class="line"><a name="l00141"></a><span class="lineno">  141</span>&#160;<span class="preprocessor">#endif // OPENMS_ANALYSIS_MAPMATCHING_FEATUREGROUPINGALGORITHMUNLABELED_H</span></div>
<div class="ttc" id="classOpenMS_1_1FeatureGroupingAlgorithmUnlabeled_html_a94f120ab601f41c978d296769610a333"><div class="ttname"><a href="classOpenMS_1_1FeatureGroupingAlgorithmUnlabeled.html#a94f120ab601f41c978d296769610a333">OpenMS::FeatureGroupingAlgorithmUnlabeled::pairfinder_input_</a></div><div class="ttdeci">std::vector&lt; ConsensusMap &gt; pairfinder_input_</div><div class="ttdef"><b>Definition:</b> FeatureGroupingAlgorithmUnlabeled.h:130</div></div>
<div class="ttc" id="classOpenMS_1_1String_html"><div class="ttname"><a href="classOpenMS_1_1String.html">OpenMS::String</a></div><div class="ttdoc">A more convenient string class. </div><div class="ttdef"><b>Definition:</b> String.h:56</div></div>
<div class="ttc" id="classOpenMS_1_1FeatureGroupingAlgorithmUnlabeled_html_a0abafe557ddee49caa4a5a606936dda3"><div class="ttname"><a href="classOpenMS_1_1FeatureGroupingAlgorithmUnlabeled.html#a0abafe557ddee49caa4a5a606936dda3">OpenMS::FeatureGroupingAlgorithmUnlabeled::getResultMap</a></div><div class="ttdeci">ConsensusMap &amp; getResultMap()</div><div class="ttdoc">Returns the computed consensus map (after calling addToGroup with all maps) </div><div class="ttdef"><b>Definition:</b> FeatureGroupingAlgorithmUnlabeled.h:86</div></div>
<div class="ttc" id="classOpenMS_1_1FeatureMap_html"><div class="ttname"><a href="classOpenMS_1_1FeatureMap.html">OpenMS::FeatureMap&lt;&gt;</a></div></div>
<div class="ttc" id="classOpenMS_1_1ConsensusMap_html"><div class="ttname"><a href="classOpenMS_1_1ConsensusMap.html">OpenMS::ConsensusMap</a></div><div class="ttdoc">A container for consensus elements. </div><div class="ttdef"><b>Definition:</b> ConsensusMap.h:60</div></div>
<div class="ttc" id="classOpenMS_1_1FeatureGroupingAlgorithmUnlabeled_html_ad5052975ead111d198ea2503b0b2b17c"><div class="ttname"><a href="classOpenMS_1_1FeatureGroupingAlgorithmUnlabeled.html#ad5052975ead111d198ea2503b0b2b17c">OpenMS::FeatureGroupingAlgorithmUnlabeled::setReference</a></div><div class="ttdeci">void setReference(int map_id, const MapType &amp;map)</div><div class="ttdoc">Sets the reference map for the algorithm. </div><div class="ttdef"><b>Definition:</b> FeatureGroupingAlgorithmUnlabeled.h:78</div></div>
<div class="ttc" id="classOpenMS_1_1FeatureGroupingAlgorithmUnlabeled_html"><div class="ttname"><a href="classOpenMS_1_1FeatureGroupingAlgorithmUnlabeled.html">OpenMS::FeatureGroupingAlgorithmUnlabeled</a></div><div class="ttdoc">A map feature grouping algorithm for unlabeled data. </div><div class="ttdef"><b>Definition:</b> FeatureGroupingAlgorithmUnlabeled.h:60</div></div>
<div class="ttc" id="classOpenMS_1_1FeatureGroupingAlgorithm_html"><div class="ttname"><a href="classOpenMS_1_1FeatureGroupingAlgorithm.html">OpenMS::FeatureGroupingAlgorithm</a></div><div class="ttdoc">Base class for all feature grouping algorithms. </div><div class="ttdef"><b>Definition:</b> FeatureGroupingAlgorithm.h:50</div></div>
<div class="ttc" id="FeatureGroupingAlgorithm_8h_html"><div class="ttname"><a href="FeatureGroupingAlgorithm_8h.html">FeatureGroupingAlgorithm.h</a></div></div>
<div class="ttc" id="classOpenMS_1_1FeatureGroupingAlgorithmUnlabeled_html_ad2ac805e16aa3138b474571b71ed96fe"><div class="ttname"><a href="classOpenMS_1_1FeatureGroupingAlgorithmUnlabeled.html#ad2ac805e16aa3138b474571b71ed96fe">OpenMS::FeatureGroupingAlgorithmUnlabeled::create</a></div><div class="ttdeci">static FeatureGroupingAlgorithm * create()</div><div class="ttdoc">Creates a new instance of this class (for Factory) </div><div class="ttdef"><b>Definition:</b> FeatureGroupingAlgorithmUnlabeled.h:111</div></div>
<div class="ttc" id="classOpenMS_1_1ConsensusMap_html_addd3e7ab2d02c8ff9377da76cf2fcaff"><div class="ttname"><a href="classOpenMS_1_1ConsensusMap.html#addd3e7ab2d02c8ff9377da76cf2fcaff">OpenMS::ConsensusMap::convert</a></div><div class="ttdeci">static void convert(UInt64 const input_map_index, FeatureMap&lt; FeatureT &gt; const &amp;input_map, ConsensusMap &amp;output_map, Size n=-1)</div><div class="ttdoc">Convert a FeatureMap (of any feature type) to a ConsensusMap. </div><div class="ttdef"><b>Definition:</b> ConsensusMap.h:230</div></div>
<div class="ttc" id="classOpenMS_1_1FeatureGroupingAlgorithmUnlabeled_html_a8d4600093afb26cff7d7db82a1837e9f"><div class="ttname"><a href="classOpenMS_1_1FeatureGroupingAlgorithmUnlabeled.html#a8d4600093afb26cff7d7db82a1837e9f">OpenMS::FeatureGroupingAlgorithmUnlabeled::getProductName</a></div><div class="ttdeci">static String getProductName()</div><div class="ttdoc">Returns the product name (for the Factory) </div><div class="ttdef"><b>Definition:</b> FeatureGroupingAlgorithmUnlabeled.h:117</div></div>
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<TD align="right"><font color="#c0c0c0">Documentation generated on Thu Nov 14 2013 11:19:13 using doxygen 1.8.5</font></TD>
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