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<li class="navelem"><a class="el" href="dir_e770f0cf77e550adde3f44739ef529fe.html">include</a></li><li class="navelem"><a class="el" href="dir_6a63c4937d4da007e55fff5dcf71e0f8.html">OpenMS</a></li><li class="navelem"><a class="el" href="dir_9f700962877a340cb515a8f4e78fa50c.html">TRANSFORMATIONS</a></li><li class="navelem"><a class="el" href="dir_37e9c1b52d0b253b62f883ccdf65930c.html">FEATUREFINDER</a></li><li class="navelem"><a class="el" href="dir_85426f95c54d3036067585334ac23a8c.html">SUPERHIRN</a></li> </ul>
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<div class="title">SHFeature.h</div> </div>
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<a href="SHFeature_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> <span class="comment">// --------------------------------------------------------------------------</span></div>
<div class="line"><a name="l00002"></a><span class="lineno"> 2</span> <span class="comment">// OpenMS -- Open-Source Mass Spectrometry</span></div>
<div class="line"><a name="l00003"></a><span class="lineno"> 3</span> <span class="comment">// --------------------------------------------------------------------------</span></div>
<div class="line"><a name="l00004"></a><span class="lineno"> 4</span> <span class="comment">// Copyright The OpenMS Team -- Eberhard Karls University Tuebingen,</span></div>
<div class="line"><a name="l00005"></a><span class="lineno"> 5</span> <span class="comment">// ETH Zurich, and Freie Universitaet Berlin 2002-2013.</span></div>
<div class="line"><a name="l00006"></a><span class="lineno"> 6</span> <span class="comment">//</span></div>
<div class="line"><a name="l00007"></a><span class="lineno"> 7</span> <span class="comment">// This software is released under a three-clause BSD license:</span></div>
<div class="line"><a name="l00008"></a><span class="lineno"> 8</span> <span class="comment">// * Redistributions of source code must retain the above copyright</span></div>
<div class="line"><a name="l00009"></a><span class="lineno"> 9</span> <span class="comment">// notice, this list of conditions and the following disclaimer.</span></div>
<div class="line"><a name="l00010"></a><span class="lineno"> 10</span> <span class="comment">// * Redistributions in binary form must reproduce the above copyright</span></div>
<div class="line"><a name="l00011"></a><span class="lineno"> 11</span> <span class="comment">// notice, this list of conditions and the following disclaimer in the</span></div>
<div class="line"><a name="l00012"></a><span class="lineno"> 12</span> <span class="comment">// documentation and/or other materials provided with the distribution.</span></div>
<div class="line"><a name="l00013"></a><span class="lineno"> 13</span> <span class="comment">// * Neither the name of any author or any participating institution</span></div>
<div class="line"><a name="l00014"></a><span class="lineno"> 14</span> <span class="comment">// may be used to endorse or promote products derived from this software</span></div>
<div class="line"><a name="l00015"></a><span class="lineno"> 15</span> <span class="comment">// without specific prior written permission.</span></div>
<div class="line"><a name="l00016"></a><span class="lineno"> 16</span> <span class="comment">// For a full list of authors, refer to the file AUTHORS.</span></div>
<div class="line"><a name="l00017"></a><span class="lineno"> 17</span> <span class="comment">// --------------------------------------------------------------------------</span></div>
<div class="line"><a name="l00018"></a><span class="lineno"> 18</span> <span class="comment">// THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"</span></div>
<div class="line"><a name="l00019"></a><span class="lineno"> 19</span> <span class="comment">// AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE</span></div>
<div class="line"><a name="l00020"></a><span class="lineno"> 20</span> <span class="comment">// IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE</span></div>
<div class="line"><a name="l00021"></a><span class="lineno"> 21</span> <span class="comment">// ARE DISCLAIMED. IN NO EVENT SHALL ANY OF THE AUTHORS OR THE CONTRIBUTING</span></div>
<div class="line"><a name="l00022"></a><span class="lineno"> 22</span> <span class="comment">// INSTITUTIONS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL,</span></div>
<div class="line"><a name="l00023"></a><span class="lineno"> 23</span> <span class="comment">// EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,</span></div>
<div class="line"><a name="l00024"></a><span class="lineno"> 24</span> <span class="comment">// PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS;</span></div>
<div class="line"><a name="l00025"></a><span class="lineno"> 25</span> <span class="comment">// OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY,</span></div>
<div class="line"><a name="l00026"></a><span class="lineno"> 26</span> <span class="comment">// WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR</span></div>
<div class="line"><a name="l00027"></a><span class="lineno"> 27</span> <span class="comment">// OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF</span></div>
<div class="line"><a name="l00028"></a><span class="lineno"> 28</span> <span class="comment">// ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.</span></div>
<div class="line"><a name="l00029"></a><span class="lineno"> 29</span> <span class="comment">//</span></div>
<div class="line"><a name="l00030"></a><span class="lineno"> 30</span> <span class="comment">// --------------------------------------------------------------------------</span></div>
<div class="line"><a name="l00031"></a><span class="lineno"> 31</span> <span class="comment">// $Maintainer: Florian Zeller $</span></div>
<div class="line"><a name="l00032"></a><span class="lineno"> 32</span> <span class="comment">// $Authors: Lukas Mueller, Markus Mueller $</span></div>
<div class="line"><a name="l00033"></a><span class="lineno"> 33</span> <span class="comment">// --------------------------------------------------------------------------</span></div>
<div class="line"><a name="l00034"></a><span class="lineno"> 34</span> <span class="comment">//</span></div>
<div class="line"><a name="l00036"></a><span class="lineno"> 36</span> <span class="comment"></span><span class="comment">//</span></div>
<div class="line"><a name="l00037"></a><span class="lineno"> 37</span> <span class="comment">// written by Lukas N Mueller, 30.3.05</span></div>
<div class="line"><a name="l00038"></a><span class="lineno"> 38</span> <span class="comment">// Lukas.Mueller@imsb.biol.ethz.ch</span></div>
<div class="line"><a name="l00039"></a><span class="lineno"> 39</span> <span class="comment">// Group of Prof. Ruedi Aebersold, IMSB, ETH Hoenggerberg, Zurich</span></div>
<div class="line"><a name="l00040"></a><span class="lineno"> 40</span> <span class="comment">//</span></div>
<div class="line"><a name="l00041"></a><span class="lineno"> 41</span> <span class="comment">// Ported to OpenMS by Florian Zeller, florian.zeller@bsse.ethz.ch</span></div>
<div class="line"><a name="l00042"></a><span class="lineno"> 42</span> <span class="comment">// December 2010</span></div>
<div class="line"><a name="l00043"></a><span class="lineno"> 43</span> <span class="comment">//</span></div>
<div class="line"><a name="l00044"></a><span class="lineno"> 44</span> </div>
<div class="line"><a name="l00045"></a><span class="lineno"> 45</span> <span class="preprocessor">#ifndef OPENMS_TRANSFORMATIONS_FEATUREFINDER_SUPERHIRN_SHFEATURE_H</span></div>
<div class="line"><a name="l00046"></a><span class="lineno"> 46</span> <span class="preprocessor"></span><span class="preprocessor">#define OPENMS_TRANSFORMATIONS_FEATUREFINDER_SUPERHIRN_SHFEATURE_H</span></div>
<div class="line"><a name="l00047"></a><span class="lineno"> 47</span> <span class="preprocessor"></span></div>
<div class="line"><a name="l00048"></a><span class="lineno"> 48</span> <span class="keyword">namespace </span>OpenMS</div>
<div class="line"><a name="l00049"></a><span class="lineno"> 49</span> {</div>
<div class="line"><a name="l00050"></a><span class="lineno"> 50</span> </div>
<div class="line"><a name="l00051"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html"> 51</a></span>  <span class="keyword">class </span>OPENMS_DLLAPI <a class="code" href="classOpenMS_1_1SHFeature.html">SHFeature</a></div>
<div class="line"><a name="l00052"></a><span class="lineno"> 52</span>  {</div>
<div class="line"><a name="l00053"></a><span class="lineno"> 53</span> </div>
<div class="line"><a name="l00055"></a><span class="lineno"> 55</span>  <span class="comment">// declaration of the private members:</span></div>
<div class="line"><a name="l00056"></a><span class="lineno"> 56</span> </div>
<div class="line"><a name="l00057"></a><span class="lineno"> 57</span> <span class="keyword">private</span>:</div>
<div class="line"><a name="l00058"></a><span class="lineno"> 58</span> </div>
<div class="line"><a name="l00060"></a><span class="lineno"> 60</span>  <span class="comment">// IDENTIFICATION PARAMETERS:</span></div>
<div class="line"><a name="l00061"></a><span class="lineno"> 61</span>  <span class="comment">// name of the spectra:</span></div>
<div class="line"><a name="l00062"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#ab49a1fff73c30ee456b289873e688f3e"> 62</a></span>  std::map<double, std::vector<MS2Info> > <a class="code" href="classOpenMS_1_1SHFeature.html#ab49a1fff73c30ee456b289873e688f3e">MS2_SCANS</a>;</div>
<div class="line"><a name="l00064"></a><span class="lineno"> 64</span> </div>
<div class="line"><a name="l00066"></a><span class="lineno"> 66</span>  <span class="comment">// raw MS peak paramaters:</span></div>
<div class="line"><a name="l00067"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#afe1a4ab1d602a4d2d8c45ef3969326f2"> 67</a></span>  <span class="keywordtype">int</span> <a class="code" href="classOpenMS_1_1SHFeature.html#afe1a4ab1d602a4d2d8c45ef3969326f2">scan_apex</a>;</div>
<div class="line"><a name="l00068"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a0855b9c3d594748c01179908ef0192a8"> 68</a></span>  <span class="keywordtype">int</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a0855b9c3d594748c01179908ef0192a8">scan_start</a>;</div>
<div class="line"><a name="l00069"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#afab1765a997ac4a2b712fb2abbfa4bf6"> 69</a></span>  <span class="keywordtype">int</span> <a class="code" href="classOpenMS_1_1SHFeature.html#afab1765a997ac4a2b712fb2abbfa4bf6">scan_end</a>;</div>
<div class="line"><a name="l00070"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#aea807d4cfb6795df87a8c18d5c002768"> 70</a></span>  <span class="keywordtype">double</span> <a class="code" href="classOpenMS_1_1SHFeature.html#aea807d4cfb6795df87a8c18d5c002768">total_peak_area</a>;</div>
<div class="line"><a name="l00071"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#ac864f0cac891260d78becdc5e2ba8f84"> 71</a></span>  <span class="keywordtype">double</span> <a class="code" href="classOpenMS_1_1SHFeature.html#ac864f0cac891260d78becdc5e2ba8f84">apex_peak_intensity</a>;</div>
<div class="line"><a name="l00072"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a7d2acdfa1fae5a1a63e2544d992504bc"> 72</a></span>  <span class="keywordtype">double</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a7d2acdfa1fae5a1a63e2544d992504bc">PEAK_SCORE</a>;</div>
<div class="line"><a name="l00073"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a2d2e02e5957b3548e0aee6c7782ea2c9"> 73</a></span>  <span class="keywordtype">double</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a2d2e02e5957b3548e0aee6c7782ea2c9">SignalToNoise</a>;</div>
<div class="line"><a name="l00074"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a32524fbbb103c7c2e5b500a1d4ad95b1"> 74</a></span>  <span class="keywordtype">double</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a32524fbbb103c7c2e5b500a1d4ad95b1">BackgroundNoise</a>;</div>
<div class="line"><a name="l00075"></a><span class="lineno"> 75</span> </div>
<div class="line"><a name="l00077"></a><span class="lineno"> 77</span>  <span class="comment">// Analysis parameters:</span></div>
<div class="line"><a name="l00078"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a80ec63435b120c76cfd6f0d237df0c1e"> 78</a></span>  <span class="keywordtype">double</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a80ec63435b120c76cfd6f0d237df0c1e">alignment_error_up</a>;</div>
<div class="line"><a name="l00079"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#ae1c866c0cebfab602252903534bd527f"> 79</a></span>  <span class="keywordtype">double</span> <a class="code" href="classOpenMS_1_1SHFeature.html#ae1c866c0cebfab602252903534bd527f">alignment_error_down</a>;</div>
<div class="line"><a name="l00080"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a224833adb062f28d016469ef64388df0"> 80</a></span>  <span class="keywordtype">double</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a224833adb062f28d016469ef64388df0">SCORE_HOLDER</a>;</div>
<div class="line"><a name="l00081"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#aafcafb19373886e77bede82fe1c4b090"> 81</a></span>  <span class="keywordtype">bool</span> <a class="code" href="classOpenMS_1_1SHFeature.html#aafcafb19373886e77bede82fe1c4b090">feature_match_status</a>;</div>
<div class="line"><a name="l00082"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a4e36555c8609254715858261f34dfd94"> 82</a></span>  <span class="keywordtype">double</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a4e36555c8609254715858261f34dfd94">PI</a>;</div>
<div class="line"><a name="l00083"></a><span class="lineno"> 83</span> </div>
<div class="line"><a name="l00085"></a><span class="lineno"> 85</span>  <span class="comment">// LC/MS run ID parameters:</span></div>
<div class="line"><a name="l00086"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a2bd50c204828b4a30a572812e28b8134"> 86</a></span>  <span class="keywordtype">int</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a2bd50c204828b4a30a572812e28b8134">spectrum_ID</a>;</div>
<div class="line"><a name="l00087"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a9817411f20f7f8f2b1143ddd1af71f6f"> 87</a></span>  <span class="keywordtype">int</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a9817411f20f7f8f2b1143ddd1af71f6f">MASTER_ID</a>;</div>
<div class="line"><a name="l00088"></a><span class="lineno"> 88</span> </div>
<div class="line"><a name="l00090"></a><span class="lineno"> 90</span>  <span class="comment">// string to store ms1 feature extra information:</span></div>
<div class="line"><a name="l00091"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a64f51b488ac9ef89123e042fcf0e7c7c"> 91</a></span>  std::string <a class="code" href="classOpenMS_1_1SHFeature.html#a64f51b488ac9ef89123e042fcf0e7c7c">featureExtraInformation</a>;</div>
<div class="line"><a name="l00092"></a><span class="lineno"> 92</span> </div>
<div class="line"><a name="l00094"></a><span class="lineno"> 94</span>  <span class="comment">// LC elution profile:</span></div>
<div class="line"><a name="l00095"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a88bb99e59721c66f856bbad1be5bb253"> 95</a></span>  <a class="code" href="classOpenMS_1_1FeatureLCProfile.html">FeatureLCProfile</a> * <a class="code" href="classOpenMS_1_1SHFeature.html#a88bb99e59721c66f856bbad1be5bb253">LCprofile</a>;</div>
<div class="line"><a name="l00096"></a><span class="lineno"> 96</span> </div>
<div class="line"><a name="l00097"></a><span class="lineno"> 97</span>  <span class="comment">// static values:</span></div>
<div class="line"><a name="l00098"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a7d637c5b2a3dbd817da313c48f6906b7"> 98</a></span>  <span class="keyword">static</span> <span class="keywordtype">double</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a7d637c5b2a3dbd817da313c48f6906b7">_MONO_H</a>;</div>
<div class="line"><a name="l00099"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#ab1e0cab3d6768e3534193a4a5ac67aea"> 99</a></span>  <span class="keyword">static</span> <span class="keywordtype">double</span> <a class="code" href="classOpenMS_1_1SHFeature.html#ab1e0cab3d6768e3534193a4a5ac67aea">_MONO_O</a>;</div>
<div class="line"><a name="l00100"></a><span class="lineno"> 100</span> </div>
<div class="line"><a name="l00102"></a><span class="lineno"> 102</span>  <span class="comment">// LC/MS matching things:</span></div>
<div class="line"><a name="l00103"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a9863b40127f67b77ecd3e47b31e24fb7"> 103</a></span>  std::map<int, SHFeature> <a class="code" href="classOpenMS_1_1SHFeature.html#a9863b40127f67b77ecd3e47b31e24fb7">matched_feature_list</a>;</div>
<div class="line"><a name="l00104"></a><span class="lineno"> 104</span> </div>
<div class="line"><a name="l00105"></a><span class="lineno"> 105</span>  <span class="comment">// ranges of m/z and tr:</span></div>
<div class="line"><a name="l00106"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#aa239132694c57d4a11e49a5f4d3d25a4"> 106</a></span>  <span class="keywordtype">double</span> <a class="code" href="classOpenMS_1_1SHFeature.html#aa239132694c57d4a11e49a5f4d3d25a4">TR_APEX</a>;</div>
<div class="line"><a name="l00107"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a7d03439c16467139a207c674ba61fa41"> 107</a></span>  <span class="keywordtype">double</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a7d03439c16467139a207c674ba61fa41">MONO_MZ_START</a>;</div>
<div class="line"><a name="l00108"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a9796d06d821e497a9c78e522b350761f"> 108</a></span>  <span class="keywordtype">double</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a9796d06d821e497a9c78e522b350761f">MONO_MZ_END</a>;</div>
<div class="line"><a name="l00109"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#afb346e3eacfbf339dfa724c04b65b45d"> 109</a></span>  <span class="keywordtype">double</span> <a class="code" href="classOpenMS_1_1SHFeature.html#afb346e3eacfbf339dfa724c04b65b45d">MONO_MZ_ORIGINAL</a>;</div>
<div class="line"><a name="l00110"></a><span class="lineno"> 110</span> </div>
<div class="line"><a name="l00112"></a><span class="lineno"> 112</span>  <span class="comment">// associated MS2 feature:</span></div>
<div class="line"><a name="l00113"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a82835da146c0afd4a0f34187ad2f3966"> 113</a></span>  <a class="code" href="classOpenMS_1_1MS2Feature.html">MS2Feature</a> * <a class="code" href="classOpenMS_1_1SHFeature.html#a82835da146c0afd4a0f34187ad2f3966">MS2TraceFeature</a>;</div>
<div class="line"><a name="l00114"></a><span class="lineno"> 114</span> </div>
<div class="line"><a name="l00116"></a><span class="lineno"> 116</span>  <span class="comment">// declaration of the public members:</span></div>
<div class="line"><a name="l00117"></a><span class="lineno"> 117</span> </div>
<div class="line"><a name="l00118"></a><span class="lineno"> 118</span> <span class="keyword">public</span>:</div>
<div class="line"><a name="l00119"></a><span class="lineno"> 119</span> </div>
<div class="line"><a name="l00120"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#af6d5ab3629ea17ec17a1733f29f8a0d9"> 120</a></span>  <span class="keywordtype">double</span> <a class="code" href="classOpenMS_1_1SHFeature.html#af6d5ab3629ea17ec17a1733f29f8a0d9">TR</a>;</div>
<div class="line"><a name="l00121"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#acf9cc8b997b6cb4566cadf85c1c527d4"> 121</a></span>  <span class="keywordtype">double</span> <a class="code" href="classOpenMS_1_1SHFeature.html#acf9cc8b997b6cb4566cadf85c1c527d4">MONO_MZ</a>;</div>
<div class="line"><a name="l00122"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a9ca5357801eda85eaf890d09b6717549"> 122</a></span>  <span class="keywordtype">double</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a9ca5357801eda85eaf890d09b6717549">TR_START</a>;</div>
<div class="line"><a name="l00123"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#ab059e21bb38af0cb61c0e07e69f7e378"> 123</a></span>  <span class="keywordtype">double</span> <a class="code" href="classOpenMS_1_1SHFeature.html#ab059e21bb38af0cb61c0e07e69f7e378">TR_END</a>;</div>
<div class="line"><a name="l00124"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a6de50b2fa3bed12a08b683c71626d22d"> 124</a></span>  <span class="keywordtype">int</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a6de50b2fa3bed12a08b683c71626d22d">charge_state</a>;</div>
<div class="line"><a name="l00125"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a4b490cc4b4c5b509e03b5e4743724cdb"> 125</a></span>  <span class="keywordtype">int</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a4b490cc4b4c5b509e03b5e4743724cdb">feature_ID</a>;</div>
<div class="line"><a name="l00126"></a><span class="lineno"> 126</span> </div>
<div class="line"><a name="l00127"></a><span class="lineno"> 127</span>  <span class="comment">// class destructor</span></div>
<div class="line"><a name="l00128"></a><span class="lineno"> 128</span>  ~<a class="code" href="classOpenMS_1_1SHFeature.html">SHFeature</a>();</div>
<div class="line"><a name="l00129"></a><span class="lineno"> 129</span> </div>
<div class="line"><a name="l00130"></a><span class="lineno"> 130</span>  <span class="comment">// copy constructor:</span></div>
<div class="line"><a name="l00131"></a><span class="lineno"> 131</span>  <a class="code" href="classOpenMS_1_1SHFeature.html">SHFeature</a>(<span class="keyword">const</span> <a class="code" href="classOpenMS_1_1SHFeature.html">SHFeature</a> &);</div>
<div class="line"><a name="l00132"></a><span class="lineno"> 132</span> </div>
<div class="line"><a name="l00133"></a><span class="lineno"> 133</span>  <span class="comment">// class constructor</span></div>
<div class="line"><a name="l00134"></a><span class="lineno"> 134</span>  <a class="code" href="classOpenMS_1_1SHFeature.html">SHFeature</a>(<span class="keyword">const</span> <a class="code" href="classOpenMS_1_1SHFeature.html">SHFeature</a> *);</div>
<div class="line"><a name="l00135"></a><span class="lineno"> 135</span>  <span class="comment">// constructor for the object SHFeature:</span></div>
<div class="line"><a name="l00136"></a><span class="lineno"> 136</span>  <a class="code" href="classOpenMS_1_1SHFeature.html">SHFeature</a>(<span class="keywordtype">double</span>, <span class="keywordtype">double</span>, <span class="keywordtype">int</span>, <span class="keywordtype">int</span>, <span class="keywordtype">int</span>, <span class="keywordtype">int</span>, <span class="keywordtype">float</span>, <span class="keywordtype">float</span>, <span class="keywordtype">float</span>);</div>
<div class="line"><a name="l00137"></a><span class="lineno"> 137</span>  <span class="comment">// constructor for the object SHFeature:</span></div>
<div class="line"><a name="l00138"></a><span class="lineno"> 138</span>  <a class="code" href="classOpenMS_1_1SHFeature.html">SHFeature</a>(<span class="keywordtype">float</span>, <span class="keywordtype">int</span>, <span class="keywordtype">int</span>);</div>
<div class="line"><a name="l00139"></a><span class="lineno"> 139</span>  <a class="code" href="classOpenMS_1_1SHFeature.html">SHFeature</a>(<a class="code" href="classOpenMS_1_1MS2Feature.html">MS2Feature</a> *);</div>
<div class="line"><a name="l00140"></a><span class="lineno"> 140</span>  <a class="code" href="classOpenMS_1_1SHFeature.html">SHFeature</a>();</div>
<div class="line"><a name="l00141"></a><span class="lineno"> 141</span>  <span class="comment">// copy constructor:</span></div>
<div class="line"><a name="l00142"></a><span class="lineno"> 142</span>  <a class="code" href="classOpenMS_1_1SHFeature.html">SHFeature</a> & operator=(<span class="keyword">const</span> <a class="code" href="classOpenMS_1_1SHFeature.html">SHFeature</a> &);</div>
<div class="line"><a name="l00143"></a><span class="lineno"> 143</span> </div>
<div class="line"><a name="l00144"></a><span class="lineno"> 144</span>  <span class="comment">// show the content of the spectra</span></div>
<div class="line"><a name="l00145"></a><span class="lineno"> 145</span>  <span class="keywordtype">void</span> show_info();</div>
<div class="line"><a name="l00146"></a><span class="lineno"> 146</span>  <span class="comment">// show MS/MS spectra info:</span></div>
<div class="line"><a name="l00147"></a><span class="lineno"> 147</span>  <span class="keywordtype">void</span> showMS2consensSpectraInfo();</div>
<div class="line"><a name="l00148"></a><span class="lineno"> 148</span> </div>
<div class="line"><a name="l00150"></a><span class="lineno"> 150</span>  <span class="comment">// comparision operators:</span></div>
<div class="line"><a name="l00151"></a><span class="lineno"> 151</span>  <span class="keywordtype">bool</span> operator==(<span class="keyword">const</span> <a class="code" href="classOpenMS_1_1SHFeature.html">SHFeature</a> &);</div>
<div class="line"><a name="l00152"></a><span class="lineno"> 152</span> </div>
<div class="line"><a name="l00153"></a><span class="lineno"> 153</span>  <span class="comment">// add MS/MS info to the SHFeature:</span></div>
<div class="line"><a name="l00154"></a><span class="lineno"> 154</span>  <span class="keywordtype">void</span> add_MS2_info(<a class="code" href="classOpenMS_1_1MS2Info.html">MS2Info</a> *);</div>
<div class="line"><a name="l00155"></a><span class="lineno"> 155</span>  <span class="keywordtype">void</span> add_MS2_info(std::map<<span class="keywordtype">double</span>, std::vector<MS2Info> > *);</div>
<div class="line"><a name="l00156"></a><span class="lineno"> 156</span>  <span class="keywordtype">bool</span> get_MS2_info();</div>
<div class="line"><a name="l00157"></a><span class="lineno"> 157</span>  <span class="keywordtype">bool</span> get_MS2_info(<span class="keywordtype">double</span>);</div>
<div class="line"><a name="l00158"></a><span class="lineno"> 158</span> </div>
<div class="line"><a name="l00159"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#adaed4822839840a6d627af5ffb68f1bd"> 159</a></span>  <span class="keywordtype">bool</span> <a class="code" href="classOpenMS_1_1SHFeature.html#adaed4822839840a6d627af5ffb68f1bd">check_MS2_empty</a>()</div>
<div class="line"><a name="l00160"></a><span class="lineno"> 160</span>  {</div>
<div class="line"><a name="l00161"></a><span class="lineno"> 161</span>  <span class="keywordflow">return</span> MS2_SCANS.empty();</div>
<div class="line"><a name="l00162"></a><span class="lineno"> 162</span>  }</div>
<div class="line"><a name="l00163"></a><span class="lineno"> 163</span> </div>
<div class="line"><a name="l00164"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#ad8178edd10a25841f5278b468aabe5fb"> 164</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1SHFeature.html#ad8178edd10a25841f5278b468aabe5fb">removeAllMS2Information</a>()</div>
<div class="line"><a name="l00165"></a><span class="lineno"> 165</span>  {</div>
<div class="line"><a name="l00166"></a><span class="lineno"> 166</span>  <span class="keywordflow">return</span> MS2_SCANS.clear();</div>
<div class="line"><a name="l00167"></a><span class="lineno"> 167</span>  }</div>
<div class="line"><a name="l00168"></a><span class="lineno"> 168</span> </div>
<div class="line"><a name="l00169"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#aa217e5c2e4dc968a9144b805077457d3"> 169</a></span>  <span class="keywordtype">int</span> <a class="code" href="classOpenMS_1_1SHFeature.html#aa217e5c2e4dc968a9144b805077457d3">get_MS2_SCANS_SIZE</a>()</div>
<div class="line"><a name="l00170"></a><span class="lineno"> 170</span>  {</div>
<div class="line"><a name="l00171"></a><span class="lineno"> 171</span>  <span class="keywordflow">return</span> (<span class="keywordtype">int</span>) MS2_SCANS.size();</div>
<div class="line"><a name="l00172"></a><span class="lineno"> 172</span>  }</div>
<div class="line"><a name="l00173"></a><span class="lineno"> 173</span> </div>
<div class="line"><a name="l00174"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a4b16306ef79505f6efdf78c92998c3ed"> 174</a></span>  std::map<double, std::vector<MS2Info> > * <a class="code" href="classOpenMS_1_1SHFeature.html#a4b16306ef79505f6efdf78c92998c3ed">get_MS2_SCAN_MAP</a>()</div>
<div class="line"><a name="l00175"></a><span class="lineno"> 175</span>  {</div>
<div class="line"><a name="l00176"></a><span class="lineno"> 176</span>  <span class="keywordflow">return</span> &MS2_SCANS;</div>
<div class="line"><a name="l00177"></a><span class="lineno"> 177</span>  }</div>
<div class="line"><a name="l00178"></a><span class="lineno"> 178</span> </div>
<div class="line"><a name="l00179"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a45fb842029ab098fcca734f94658b770"> 179</a></span>  std::map<double, std::vector<MS2Info> >::iterator <a class="code" href="classOpenMS_1_1SHFeature.html#a45fb842029ab098fcca734f94658b770">get_MS2_SCANS_START</a>()</div>
<div class="line"><a name="l00180"></a><span class="lineno"> 180</span>  { <span class="keywordflow">return</span> MS2_SCANS.begin(); }</div>
<div class="line"><a name="l00181"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a444645475e458ad35dcd3c375a8672ac"> 181</a></span>  std::map<double, std::vector<MS2Info> >::iterator <a class="code" href="classOpenMS_1_1SHFeature.html#a444645475e458ad35dcd3c375a8672ac">get_MS2_SCANS_END</a>()</div>
<div class="line"><a name="l00182"></a><span class="lineno"> 182</span>  { <span class="keywordflow">return</span> MS2_SCANS.end(); }</div>
<div class="line"><a name="l00183"></a><span class="lineno"> 183</span>  <span class="comment">// get the best ms2 scan == closest to the apex:</span></div>
<div class="line"><a name="l00184"></a><span class="lineno"> 184</span>  <a class="code" href="classOpenMS_1_1MS2Info.html">MS2Info</a> * get_best_MS2_SCAN();</div>
<div class="line"><a name="l00185"></a><span class="lineno"> 185</span>  <a class="code" href="classOpenMS_1_1MS2Info.html">MS2Info</a> * get_best_MS2_SCAN(<span class="keywordtype">double</span>);</div>
<div class="line"><a name="l00186"></a><span class="lineno"> 186</span> </div>
<div class="line"><a name="l00187"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a8e7f45ed81c525f4071cf99f6c0dc51b"> 187</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a8e7f45ed81c525f4071cf99f6c0dc51b">setFeatureExtraInformation</a>(std::string in)</div>
<div class="line"><a name="l00188"></a><span class="lineno"> 188</span>  { featureExtraInformation = in; }</div>
<div class="line"><a name="l00189"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a84ac067cb1f3a41a106ba8135f655521"> 189</a></span>  std::string <a class="code" href="classOpenMS_1_1SHFeature.html#a84ac067cb1f3a41a106ba8135f655521">getFeatureExtraInformation</a>()</div>
<div class="line"><a name="l00190"></a><span class="lineno"> 190</span>  { <span class="keywordflow">return</span> featureExtraInformation; }</div>
<div class="line"><a name="l00191"></a><span class="lineno"> 191</span> </div>
<div class="line"><a name="l00192"></a><span class="lineno"> 192</span>  <span class="comment">// functions to set/access machted features:</span></div>
<div class="line"><a name="l00193"></a><span class="lineno"> 193</span>  <span class="keywordtype">void</span> add_matched_feature(<a class="code" href="classOpenMS_1_1SHFeature.html">SHFeature</a> *);</div>
<div class="line"><a name="l00194"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a148e5431860d8e21c27665460e4fed58"> 194</a></span>  std::map<int, SHFeature> * <a class="code" href="classOpenMS_1_1SHFeature.html#a148e5431860d8e21c27665460e4fed58">get_match_list_REFERENCE</a>()</div>
<div class="line"><a name="l00195"></a><span class="lineno"> 195</span>  { <span class="keywordflow">return</span> &matched_feature_list; }</div>
<div class="line"><a name="l00196"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a6ec0649cc421c915cfd2e54407ccf60d"> 196</a></span>  std::map<int, SHFeature> <a class="code" href="classOpenMS_1_1SHFeature.html#a6ec0649cc421c915cfd2e54407ccf60d">get_match_list</a>()</div>
<div class="line"><a name="l00197"></a><span class="lineno"> 197</span>  { <span class="keywordflow">return</span> matched_feature_list; }</div>
<div class="line"><a name="l00198"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#aaa8fbe776e8b0f79478a2b61f62b9531"> 198</a></span>  std::map<int, SHFeature>::iterator <a class="code" href="classOpenMS_1_1SHFeature.html#aaa8fbe776e8b0f79478a2b61f62b9531">get_match_list_start</a>()</div>
<div class="line"><a name="l00199"></a><span class="lineno"> 199</span>  { <span class="keywordflow">return</span> matched_feature_list.begin(); }</div>
<div class="line"><a name="l00200"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a411137d210247211b05be0f8a1f4db54"> 200</a></span>  std::map<int, SHFeature>::iterator <a class="code" href="classOpenMS_1_1SHFeature.html#a411137d210247211b05be0f8a1f4db54">get_match_list_end</a>()</div>
<div class="line"><a name="l00201"></a><span class="lineno"> 201</span>  { <span class="keywordflow">return</span> matched_feature_list.end(); }</div>
<div class="line"><a name="l00202"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#aa4239082783d826109e0879fdfaed3a7"> 202</a></span>  std::map<int, SHFeature>::iterator <a class="code" href="classOpenMS_1_1SHFeature.html#aa4239082783d826109e0879fdfaed3a7">find_match_by_id</a>(<span class="keywordtype">int</span> ID)</div>
<div class="line"><a name="l00203"></a><span class="lineno"> 203</span>  { <span class="keywordflow">return</span> matched_feature_list.find(ID); }</div>
<div class="line"><a name="l00204"></a><span class="lineno"> 204</span> </div>
<div class="line"><a name="l00205"></a><span class="lineno"> 205</span>  <span class="comment">// get feature at a certain LC-MS by LC_MS id</span></div>
<div class="line"><a name="l00206"></a><span class="lineno"> 206</span>  <a class="code" href="classOpenMS_1_1SHFeature.html">SHFeature</a> * get_feature(<span class="keywordtype">int</span>);</div>
<div class="line"><a name="l00207"></a><span class="lineno"> 207</span> </div>
<div class="line"><a name="l00208"></a><span class="lineno"> 208</span>  <span class="comment">// get the total peak are over all matched features:</span></div>
<div class="line"><a name="l00209"></a><span class="lineno"> 209</span>  <span class="keywordtype">double</span> get_MATCHED_peak_area();</div>
<div class="line"><a name="l00210"></a><span class="lineno"> 210</span>  <span class="keywordtype">bool</span> check_match_by_id(<span class="keywordtype">int</span>);</div>
<div class="line"><a name="l00211"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a449cfacbd071797a32e3303d838664cd"> 211</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a449cfacbd071797a32e3303d838664cd">erase_match_list</a>()</div>
<div class="line"><a name="l00212"></a><span class="lineno"> 212</span>  { matched_feature_list.clear(); }</div>
<div class="line"><a name="l00213"></a><span class="lineno"> 213</span>  <span class="comment">// get the profile over all matched features:</span></div>
<div class="line"><a name="l00214"></a><span class="lineno"> 214</span>  std::map<int, double> get_feature_profile();</div>
<div class="line"><a name="l00215"></a><span class="lineno"> 215</span> </div>
<div class="line"><a name="l00216"></a><span class="lineno"> 216</span>  <span class="comment">// return number of times this feature has been seen = nb_replicates in list plus 1!</span></div>
<div class="line"><a name="l00217"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a2f9b87c56d7e8ae66b931984bc8f40be"> 217</a></span>  <span class="keywordtype">int</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a2f9b87c56d7e8ae66b931984bc8f40be">get_replicate_match_nb</a>()</div>
<div class="line"><a name="l00218"></a><span class="lineno"> 218</span>  { <span class="keywordflow">return</span> (<span class="keywordtype">int</span>) (matched_feature_list.size() + 1); }</div>
<div class="line"><a name="l00219"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a2eb7f79acd2ffa4be4d3cccf149ec646"> 219</a></span>  <span class="keywordtype">int</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a2eb7f79acd2ffa4be4d3cccf149ec646">get_matching_nb</a>()</div>
<div class="line"><a name="l00220"></a><span class="lineno"> 220</span>  { <span class="keywordflow">return</span> get_replicate_match_nb(); }</div>
<div class="line"><a name="l00221"></a><span class="lineno"> 221</span>  <span class="comment">// return the sum of all intensities over replicates:</span></div>
<div class="line"><a name="l00222"></a><span class="lineno"> 222</span>  <span class="keywordtype">double</span> get_replicate_intensity_sum();</div>
<div class="line"><a name="l00223"></a><span class="lineno"> 223</span> </div>
<div class="line"><a name="l00225"></a><span class="lineno"> 225</span>  <span class="comment">// start here all the get / set</span></div>
<div class="line"><a name="l00226"></a><span class="lineno"> 226</span>  <span class="comment">// function to access the</span></div>
<div class="line"><a name="l00227"></a><span class="lineno"> 227</span>  <span class="comment">// variables of the class</span></div>
<div class="line"><a name="l00228"></a><span class="lineno"> 228</span> </div>
<div class="line"><a name="l00229"></a><span class="lineno"> 229</span>  <span class="comment">// access the parent mass of feature, calculated from the SQ</span></div>
<div class="line"><a name="l00230"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a6e33f15077fbd54ec8ee091fe49fde76"> 230</a></span>  <span class="keywordtype">double</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a6e33f15077fbd54ec8ee091fe49fde76">get_MZ</a>()</div>
<div class="line"><a name="l00231"></a><span class="lineno"> 231</span>  { <span class="keywordflow">return</span> MONO_MZ; }</div>
<div class="line"><a name="l00232"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#adaf208ac9da28efbf9ac7178e8496b5c"> 232</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1SHFeature.html#adaf208ac9da28efbf9ac7178e8496b5c">set_MZ</a>(<span class="keywordtype">double</span> in)</div>
<div class="line"><a name="l00233"></a><span class="lineno"> 233</span>  { MONO_MZ = in; }</div>
<div class="line"><a name="l00234"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#affa4ca2d08a0e48544ddd23a66245da4"> 234</a></span>  <span class="keywordtype">double</span> <a class="code" href="classOpenMS_1_1SHFeature.html#affa4ca2d08a0e48544ddd23a66245da4">get_MZ_START</a>()</div>
<div class="line"><a name="l00235"></a><span class="lineno"> 235</span>  { <span class="keywordflow">return</span> MONO_MZ_START; }</div>
<div class="line"><a name="l00236"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#ad2d77de27f14cc62f3c72c489a098db6"> 236</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1SHFeature.html#ad2d77de27f14cc62f3c72c489a098db6">set_MZ_START</a>(<span class="keywordtype">double</span> IN)</div>
<div class="line"><a name="l00237"></a><span class="lineno"> 237</span>  { MONO_MZ_START = IN; }</div>
<div class="line"><a name="l00238"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a82b64922c8da6a6c7ac603325bb7e3d2"> 238</a></span>  <span class="keywordtype">double</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a82b64922c8da6a6c7ac603325bb7e3d2">get_MZ_END</a>()</div>
<div class="line"><a name="l00239"></a><span class="lineno"> 239</span>  { <span class="keywordflow">return</span> MONO_MZ_END; }</div>
<div class="line"><a name="l00240"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#acb3650648136be91a11a842016e7e737"> 240</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1SHFeature.html#acb3650648136be91a11a842016e7e737">set_MZ_END</a>(<span class="keywordtype">double</span> IN)</div>
<div class="line"><a name="l00241"></a><span class="lineno"> 241</span>  { MONO_MZ_END = IN; }</div>
<div class="line"><a name="l00242"></a><span class="lineno"> 242</span> </div>
<div class="line"><a name="l00243"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#af20ba7314bb42bd1bf86e05b1c809ab3"> 243</a></span>  <span class="keywordtype">double</span> <a class="code" href="classOpenMS_1_1SHFeature.html#af20ba7314bb42bd1bf86e05b1c809ab3">get_THEO_MZ</a>()</div>
<div class="line"><a name="l00244"></a><span class="lineno"> 244</span>  { <span class="keywordflow">return</span> get_best_MS2_SCAN()->get_MONO_MZ(); }</div>
<div class="line"><a name="l00245"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#abffae27e4de5afc4215fbf81650e0fb5"> 245</a></span>  <span class="keywordtype">double</span> <a class="code" href="classOpenMS_1_1SHFeature.html#abffae27e4de5afc4215fbf81650e0fb5">get_THEO_MZ</a>(<span class="keywordtype">double</span> T)</div>
<div class="line"><a name="l00246"></a><span class="lineno"> 246</span>  { <span class="keywordflow">return</span> get_best_MS2_SCAN(T)->get_MONO_MZ(); }</div>
<div class="line"><a name="l00247"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#acc7206e6881e8d9cb434cc9aec535607"> 247</a></span>  std::string <a class="code" href="classOpenMS_1_1SHFeature.html#acc7206e6881e8d9cb434cc9aec535607">get_AC</a>()</div>
<div class="line"><a name="l00248"></a><span class="lineno"> 248</span>  { <span class="keywordflow">return</span> get_best_MS2_SCAN()->get_AC(); }</div>
<div class="line"><a name="l00249"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a5a56385f33464d89e74e221536a1a06f"> 249</a></span>  std::string <a class="code" href="classOpenMS_1_1SHFeature.html#a5a56385f33464d89e74e221536a1a06f">get_AC</a>(<span class="keywordtype">double</span> T)</div>
<div class="line"><a name="l00250"></a><span class="lineno"> 250</span>  { <span class="keywordflow">return</span> get_best_MS2_SCAN(T)->get_AC(); }</div>
<div class="line"><a name="l00251"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#ab3eaf106a8a5ecb3dc2d6c1e9740d0e2"> 251</a></span>  <span class="keywordtype">bool</span> <a class="code" href="classOpenMS_1_1SHFeature.html#ab3eaf106a8a5ecb3dc2d6c1e9740d0e2">check_AC</a>(std::string IN)</div>
<div class="line"><a name="l00252"></a><span class="lineno"> 252</span>  { <span class="keywordflow">return</span> get_best_MS2_SCAN()->compare_AC(IN); }</div>
<div class="line"><a name="l00253"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a4b629e2c54cd0c1b2e40177fdf93d8ea"> 253</a></span>  <span class="keywordtype">bool</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a4b629e2c54cd0c1b2e40177fdf93d8ea">check_AC</a>(std::string IN, <span class="keywordtype">double</span> T)</div>
<div class="line"><a name="l00254"></a><span class="lineno"> 254</span>  { <span class="keywordflow">return</span> get_best_MS2_SCAN(T)->compare_AC(IN); }</div>
<div class="line"><a name="l00255"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#abf057eea0474bbd48c969f3cd1d08a53"> 255</a></span>  std::string <a class="code" href="classOpenMS_1_1SHFeature.html#abf057eea0474bbd48c969f3cd1d08a53">get_SQ</a>()</div>
<div class="line"><a name="l00256"></a><span class="lineno"> 256</span>  { <span class="keywordflow">return</span> get_best_MS2_SCAN()->get_SQ(); }</div>
<div class="line"><a name="l00257"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a10b390fbf98ad9d8483221325db3d91e"> 257</a></span>  std::string <a class="code" href="classOpenMS_1_1SHFeature.html#a10b390fbf98ad9d8483221325db3d91e">get_SQ</a>(<span class="keywordtype">double</span> T)</div>
<div class="line"><a name="l00258"></a><span class="lineno"> 258</span>  { <span class="keywordflow">return</span> get_best_MS2_SCAN(T)->get_SQ(); }</div>
<div class="line"><a name="l00259"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a4f4b3d658fa78c6ae3952d0678d66191"> 259</a></span>  std::string <a class="code" href="classOpenMS_1_1SHFeature.html#a4f4b3d658fa78c6ae3952d0678d66191">get_TOTAL_SQ</a>()</div>
<div class="line"><a name="l00260"></a><span class="lineno"> 260</span>  { <span class="keywordflow">return</span> get_best_MS2_SCAN()->get_TOTAL_SQ(); }</div>
<div class="line"><a name="l00261"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#aa4275085442f2817b042742ef117f44e"> 261</a></span>  std::string <a class="code" href="classOpenMS_1_1SHFeature.html#aa4275085442f2817b042742ef117f44e">get_TOTAL_SQ</a>(<span class="keywordtype">double</span> T)</div>
<div class="line"><a name="l00262"></a><span class="lineno"> 262</span>  { <span class="keywordflow">return</span> get_best_MS2_SCAN(T)->get_TOTAL_SQ(); }</div>
<div class="line"><a name="l00263"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a0c7f15c91436e3cb17b3f641e864ac62"> 263</a></span>  std::string <a class="code" href="classOpenMS_1_1SHFeature.html#a0c7f15c91436e3cb17b3f641e864ac62">get_MOD_SQ</a>()</div>
<div class="line"><a name="l00264"></a><span class="lineno"> 264</span>  { <span class="keywordflow">return</span> get_best_MS2_SCAN()->get_MOD_SQ(); }</div>
<div class="line"><a name="l00265"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#ad7c5d8a153babb07d78f522cd20c0223"> 265</a></span>  std::string <a class="code" href="classOpenMS_1_1SHFeature.html#ad7c5d8a153babb07d78f522cd20c0223">get_MOD_SQ</a>(<span class="keywordtype">double</span> T)</div>
<div class="line"><a name="l00266"></a><span class="lineno"> 266</span>  { <span class="keywordflow">return</span> get_best_MS2_SCAN(T)->get_MOD_SQ(); }</div>
<div class="line"><a name="l00267"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a0f1c8ecede55ae1ff92e1ab83e350c10"> 267</a></span>  <span class="keywordtype">double</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a0f1c8ecede55ae1ff92e1ab83e350c10">get_pep_prob</a>()</div>
<div class="line"><a name="l00268"></a><span class="lineno"> 268</span>  { <span class="keywordflow">return</span> get_best_MS2_SCAN()->get_PEP_PROB(); }</div>
<div class="line"><a name="l00269"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a72c536debc13f5c44ad42ea696d55adc"> 269</a></span>  <span class="keywordtype">double</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a72c536debc13f5c44ad42ea696d55adc">get_pep_prob</a>(<span class="keywordtype">double</span> T)</div>
<div class="line"><a name="l00270"></a><span class="lineno"> 270</span>  { <span class="keywordflow">return</span> get_best_MS2_SCAN(T)->get_PEP_PROB(); }</div>
<div class="line"><a name="l00271"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#ae4ca4d3986e6f48e580fec832e74c2b4"> 271</a></span>  std::string <a class="code" href="classOpenMS_1_1SHFeature.html#ae4ca4d3986e6f48e580fec832e74c2b4">get_MS2_TYPE_TAG</a>()</div>
<div class="line"><a name="l00272"></a><span class="lineno"> 272</span>  { <span class="keywordflow">return</span> get_best_MS2_SCAN()->get_MS2_TYPE_TAG(); }</div>
<div class="line"><a name="l00273"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a02ccd1829c2ab066295c681b409fa47b"> 273</a></span>  std::string <a class="code" href="classOpenMS_1_1SHFeature.html#a02ccd1829c2ab066295c681b409fa47b">get_MS2_TYPE_TAG</a>(<span class="keywordtype">double</span> T)</div>
<div class="line"><a name="l00274"></a><span class="lineno"> 274</span>  { <span class="keywordflow">return</span> get_best_MS2_SCAN(T)->get_MS2_TYPE_TAG(); }</div>
<div class="line"><a name="l00275"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a71cfac4a297ba88188eb63e73be4d26c"> 275</a></span>  <span class="keywordtype">int</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a71cfac4a297ba88188eb63e73be4d26c">get_MS2_scan</a>()</div>
<div class="line"><a name="l00276"></a><span class="lineno"> 276</span>  { <span class="keywordflow">return</span> get_best_MS2_SCAN()->get_SCAN_START(); }</div>
<div class="line"><a name="l00277"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a6d2c1f22a2dbbc2c2bf2e5841183776f"> 277</a></span>  <span class="keywordtype">int</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a6d2c1f22a2dbbc2c2bf2e5841183776f">get_MS2_scan</a>(<span class="keywordtype">double</span> T)</div>
<div class="line"><a name="l00278"></a><span class="lineno"> 278</span>  { <span class="keywordflow">return</span> get_best_MS2_SCAN(T)->get_SCAN_START(); }</div>
<div class="line"><a name="l00279"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#afcd5909fdc9d7051076aa7179a217b3d"> 279</a></span>  std::map<double, std::vector<MS2Info> > * <a class="code" href="classOpenMS_1_1SHFeature.html#afcd5909fdc9d7051076aa7179a217b3d">get_MS2_SCAN_LIST</a>()</div>
<div class="line"><a name="l00280"></a><span class="lineno"> 280</span>  { <span class="keywordflow">return</span> &(MS2_SCANS); }</div>
<div class="line"><a name="l00281"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#aff853ca2fa50554d2d5cc94df339fae2"> 281</a></span>  std::map<double, std::vector<MS2Info> >::iterator <a class="code" href="classOpenMS_1_1SHFeature.html#aff853ca2fa50554d2d5cc94df339fae2">get_MS2_SCAN_LIST_START</a>()</div>
<div class="line"><a name="l00282"></a><span class="lineno"> 282</span>  { <span class="keywordflow">return</span> MS2_SCANS.begin(); }</div>
<div class="line"><a name="l00283"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a01ad4c6b072d84eff259cc71fe58cf6a"> 283</a></span>  std::map<double, std::vector<MS2Info> >::iterator <a class="code" href="classOpenMS_1_1SHFeature.html#a01ad4c6b072d84eff259cc71fe58cf6a">get_MS2_SCAN_LIST_END</a>()</div>
<div class="line"><a name="l00284"></a><span class="lineno"> 284</span>  { <span class="keywordflow">return</span> MS2_SCANS.end(); }</div>
<div class="line"><a name="l00285"></a><span class="lineno"> 285</span> </div>
<div class="line"><a name="l00286"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a18c68cf2f6880ce89d27ea32fbc38372"> 286</a></span>  <span class="keywordtype">int</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a18c68cf2f6880ce89d27ea32fbc38372">get_scan_number</a>()</div>
<div class="line"><a name="l00287"></a><span class="lineno"> 287</span>  { <span class="keywordflow">return</span> scan_apex; }</div>
<div class="line"><a name="l00288"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a924791374fc40450bf1fa49859d7b832"> 288</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a924791374fc40450bf1fa49859d7b832">set_scan_number</a>(<span class="keywordtype">int</span> IN)</div>
<div class="line"><a name="l00289"></a><span class="lineno"> 289</span>  { scan_apex = IN; }</div>
<div class="line"><a name="l00290"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a587d777f7893a54bd69c503de56792d1"> 290</a></span>  <span class="keywordtype">int</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a587d777f7893a54bd69c503de56792d1">get_scan_start</a>()</div>
<div class="line"><a name="l00291"></a><span class="lineno"> 291</span>  { <span class="keywordflow">return</span> scan_start; }</div>
<div class="line"><a name="l00292"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a702505a6e19d6a6a8a45e9ab226f0476"> 292</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a702505a6e19d6a6a8a45e9ab226f0476">set_scan_start</a>(<span class="keywordtype">int</span> IN)</div>
<div class="line"><a name="l00293"></a><span class="lineno"> 293</span>  { scan_start = IN; }</div>
<div class="line"><a name="l00294"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#afccaa2da5e458142ecf3cebd93e441a4"> 294</a></span>  <span class="keywordtype">int</span> <a class="code" href="classOpenMS_1_1SHFeature.html#afccaa2da5e458142ecf3cebd93e441a4">get_scan_end</a>()</div>
<div class="line"><a name="l00295"></a><span class="lineno"> 295</span>  { <span class="keywordflow">return</span> scan_end; }</div>
<div class="line"><a name="l00296"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a0932b29f54649f0feb6aa34d23f7f341"> 296</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a0932b29f54649f0feb6aa34d23f7f341">set_scan_end</a>(<span class="keywordtype">int</span> IN)</div>
<div class="line"><a name="l00297"></a><span class="lineno"> 297</span>  { scan_end = IN; }</div>
<div class="line"><a name="l00298"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a7cc0ff90acee6ff6f42056737fb78a22"> 298</a></span>  <span class="keywordtype">int</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a7cc0ff90acee6ff6f42056737fb78a22">get_charge_state</a>()</div>
<div class="line"><a name="l00299"></a><span class="lineno"> 299</span>  { <span class="keywordflow">return</span> charge_state; }</div>
<div class="line"><a name="l00300"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#ae2e9f8c3eadcc51e0bebbf433dc62f5e"> 300</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1SHFeature.html#ae2e9f8c3eadcc51e0bebbf433dc62f5e">set_charge_state</a>(<span class="keywordtype">int</span> IN)</div>
<div class="line"><a name="l00301"></a><span class="lineno"> 301</span>  { charge_state = IN; }</div>
<div class="line"><a name="l00302"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#af987d88728f330c662831d206b299f05"> 302</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1SHFeature.html#af987d88728f330c662831d206b299f05">set_peak_area</a>(<span class="keywordtype">float</span> IN)</div>
<div class="line"><a name="l00303"></a><span class="lineno"> 303</span>  { total_peak_area = IN; }</div>
<div class="line"><a name="l00304"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a8c5ab66df4471cfb30d7a34082d0c3fd"> 304</a></span>  <span class="keywordtype">double</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a8c5ab66df4471cfb30d7a34082d0c3fd">get_peak_area</a>()</div>
<div class="line"><a name="l00305"></a><span class="lineno"> 305</span>  { <span class="keywordflow">return</span> total_peak_area; }</div>
<div class="line"><a name="l00306"></a><span class="lineno"> 306</span>  <span class="comment">// get peak area at a certain LC/MS:</span></div>
<div class="line"><a name="l00307"></a><span class="lineno"> 307</span>  <span class="keywordtype">double</span> get_peak_area(<span class="keywordtype">int</span>);</div>
<div class="line"><a name="l00308"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a90c221cf98cba1a48bf761bedf49b6b6"> 308</a></span>  <span class="keywordtype">double</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a90c221cf98cba1a48bf761bedf49b6b6">get_apex_peak_intensity</a>()</div>
<div class="line"><a name="l00309"></a><span class="lineno"> 309</span>  { <span class="keywordflow">return</span> apex_peak_intensity; }</div>
<div class="line"><a name="l00310"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#aa29c289933f023ffda18377012e2f410"> 310</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1SHFeature.html#aa29c289933f023ffda18377012e2f410">set_apex_peak_intensity</a>(<span class="keywordtype">double</span> in)</div>
<div class="line"><a name="l00311"></a><span class="lineno"> 311</span>  { apex_peak_intensity = in; }</div>
<div class="line"><a name="l00312"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#ad0cf8d020e7caac3c28bb16d01087730"> 312</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1SHFeature.html#ad0cf8d020e7caac3c28bb16d01087730">normalize_peak_area_by_factor</a>(<span class="keywordtype">double</span> factor)</div>
<div class="line"><a name="l00313"></a><span class="lineno"> 313</span>  { total_peak_area *= factor; }</div>
<div class="line"><a name="l00314"></a><span class="lineno"> 314</span> </div>
<div class="line"><a name="l00315"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a9f456c9a97494559f25446febcf62f75"> 315</a></span>  <span class="keywordtype">double</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a9f456c9a97494559f25446febcf62f75">get_alignment_error_up</a>()</div>
<div class="line"><a name="l00316"></a><span class="lineno"> 316</span>  { <span class="keywordflow">return</span> alignment_error_up; }</div>
<div class="line"><a name="l00317"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#afb2c107b1e9945827c97121ab8f751c2"> 317</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1SHFeature.html#afb2c107b1e9945827c97121ab8f751c2">set_alignment_error_up</a>(<span class="keywordtype">double</span> IN)</div>
<div class="line"><a name="l00318"></a><span class="lineno"> 318</span>  { alignment_error_up = IN; }</div>
<div class="line"><a name="l00319"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a2f0f29a0615e015031347a2417474200"> 319</a></span>  <span class="keywordtype">double</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a2f0f29a0615e015031347a2417474200">get_alignment_error_down</a>()</div>
<div class="line"><a name="l00320"></a><span class="lineno"> 320</span>  { <span class="keywordflow">return</span> alignment_error_down; }</div>
<div class="line"><a name="l00321"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a201f89bb5d1283a36b5276b67078fc53"> 321</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a201f89bb5d1283a36b5276b67078fc53">set_alignment_error_down</a>(<span class="keywordtype">double</span> IN)</div>
<div class="line"><a name="l00322"></a><span class="lineno"> 322</span>  { alignment_error_down = IN; }</div>
<div class="line"><a name="l00323"></a><span class="lineno"> 323</span> </div>
<div class="line"><a name="l00324"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a4e6ba4757e8935e072c95fa81e2d66c9"> 324</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a4e6ba4757e8935e072c95fa81e2d66c9">set_SCORE_HOLDER</a>(<span class="keywordtype">double</span> IN)</div>
<div class="line"><a name="l00325"></a><span class="lineno"> 325</span>  { SCORE_HOLDER = IN; }</div>
<div class="line"><a name="l00326"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a39961677d2c98f97c21bc47077c05e34"> 326</a></span>  <span class="keywordtype">double</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a39961677d2c98f97c21bc47077c05e34">get_SCORE_HOLDER</a>()</div>
<div class="line"><a name="l00327"></a><span class="lineno"> 327</span>  { <span class="keywordflow">return</span> SCORE_HOLDER; }</div>
<div class="line"><a name="l00328"></a><span class="lineno"> 328</span> </div>
<div class="line"><a name="l00329"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a8c0542399672c48cbb5483e9677787be"> 329</a></span>  <span class="keywordtype">double</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a8c0542399672c48cbb5483e9677787be">get_retention_time</a>()</div>
<div class="line"><a name="l00330"></a><span class="lineno"> 330</span>  { <span class="keywordflow">return</span> TR; }</div>
<div class="line"><a name="l00331"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a20f37f1701425aa459d6e94ed4021b7c"> 331</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a20f37f1701425aa459d6e94ed4021b7c">set_retention_time</a>(<span class="keywordtype">double</span> IN)</div>
<div class="line"><a name="l00332"></a><span class="lineno"> 332</span>  { TR = IN; }</div>
<div class="line"><a name="l00333"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a1d7b255693636bb6128eb0be962e9c41"> 333</a></span>  <span class="keywordtype">double</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a1d7b255693636bb6128eb0be962e9c41">get_retention_time_START</a>()</div>
<div class="line"><a name="l00334"></a><span class="lineno"> 334</span>  { <span class="keywordflow">return</span> TR_START; }</div>
<div class="line"><a name="l00335"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a1cf41a4cda12031a2d98115ec32ea94c"> 335</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a1cf41a4cda12031a2d98115ec32ea94c">set_retention_time_START</a>(<span class="keywordtype">double</span> IN)</div>
<div class="line"><a name="l00336"></a><span class="lineno"> 336</span>  { TR_START = IN; }</div>
<div class="line"><a name="l00337"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a9fa3d2274e32a6a12d25b6a02736ff75"> 337</a></span>  <span class="keywordtype">double</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a9fa3d2274e32a6a12d25b6a02736ff75">get_retention_time_END</a>()</div>
<div class="line"><a name="l00338"></a><span class="lineno"> 338</span>  { <span class="keywordflow">return</span> TR_END; }</div>
<div class="line"><a name="l00339"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a082a347ebfbc6c2787d1cfc63151144b"> 339</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a082a347ebfbc6c2787d1cfc63151144b">set_retention_time_END</a>(<span class="keywordtype">double</span> IN)</div>
<div class="line"><a name="l00340"></a><span class="lineno"> 340</span>  { TR_END = IN; }</div>
<div class="line"><a name="l00341"></a><span class="lineno"> 341</span> </div>
<div class="line"><a name="l00342"></a><span class="lineno"> 342</span>  <span class="comment">// original mz and Tr coordinates</span></div>
<div class="line"><a name="l00343"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a8b004a39a00f13d3901efabe41df3952"> 343</a></span>  <span class="keywordtype">double</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a8b004a39a00f13d3901efabe41df3952">get_raw_retention_time_apex</a>()</div>
<div class="line"><a name="l00344"></a><span class="lineno"> 344</span>  { <span class="keywordflow">return</span> TR_APEX; }</div>
<div class="line"><a name="l00345"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#ad6ef8d8ce51e78fcb7a10d8a5e353820"> 345</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1SHFeature.html#ad6ef8d8ce51e78fcb7a10d8a5e353820">set_raw_retention_time_apex</a>(<span class="keywordtype">double</span> IN)</div>
<div class="line"><a name="l00346"></a><span class="lineno"> 346</span>  { TR_APEX = IN; }</div>
<div class="line"><a name="l00347"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a00c914ac9e98d47f9ee092e6236c4eef"> 347</a></span>  <span class="keywordtype">double</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a00c914ac9e98d47f9ee092e6236c4eef">get_raw_MZ</a>()</div>
<div class="line"><a name="l00348"></a><span class="lineno"> 348</span>  { <span class="keywordflow">return</span> MONO_MZ_ORIGINAL; }</div>
<div class="line"><a name="l00349"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#af932f92e19797e102406d9abd4dceaf3"> 349</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1SHFeature.html#af932f92e19797e102406d9abd4dceaf3">set_raw_MZ</a>(<span class="keywordtype">double</span> IN)</div>
<div class="line"><a name="l00350"></a><span class="lineno"> 350</span>  { MONO_MZ_ORIGINAL = IN; }</div>
<div class="line"><a name="l00351"></a><span class="lineno"> 351</span> </div>
<div class="line"><a name="l00352"></a><span class="lineno"> 352</span>  <span class="comment">// feature ID:</span></div>
<div class="line"><a name="l00353"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#ab89d41ecea95fdfe48a60fb13470610a"> 353</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1SHFeature.html#ab89d41ecea95fdfe48a60fb13470610a">set_feature_ID</a>(<span class="keywordtype">int</span> IN)</div>
<div class="line"><a name="l00354"></a><span class="lineno"> 354</span>  { feature_ID = IN; }</div>
<div class="line"><a name="l00355"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a9859dad25e54a0f0c6754fbf8697dcea"> 355</a></span>  <span class="keywordtype">int</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a9859dad25e54a0f0c6754fbf8697dcea">get_feature_ID</a>()</div>
<div class="line"><a name="l00356"></a><span class="lineno"> 356</span>  { <span class="keywordflow">return</span> feature_ID; }</div>
<div class="line"><a name="l00357"></a><span class="lineno"> 357</span> </div>
<div class="line"><a name="l00358"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#ae7a1a66bf017082d76cf96c65310faf3"> 358</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1SHFeature.html#ae7a1a66bf017082d76cf96c65310faf3">set_spectrum_ID</a>(<span class="keywordtype">int</span> IN)</div>
<div class="line"><a name="l00359"></a><span class="lineno"> 359</span>  {</div>
<div class="line"><a name="l00360"></a><span class="lineno"> 360</span>  spectrum_ID = IN;</div>
<div class="line"><a name="l00361"></a><span class="lineno"> 361</span>  <span class="comment">/*</span></div>
<div class="line"><a name="l00362"></a><span class="lineno"> 362</span> <span class="comment"> if( MS2TraceFeature != NULL){</span></div>
<div class="line"><a name="l00363"></a><span class="lineno"> 363</span> <span class="comment"> MS2TraceFeature.set</span></div>
<div class="line"><a name="l00364"></a><span class="lineno"> 364</span> <span class="comment"> }</span></div>
<div class="line"><a name="l00365"></a><span class="lineno"> 365</span> <span class="comment"> */</span></div>
<div class="line"><a name="l00366"></a><span class="lineno"> 366</span>  }</div>
<div class="line"><a name="l00367"></a><span class="lineno"> 367</span> </div>
<div class="line"><a name="l00368"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a30d75220b3fb99ea3b48f7f8098105e8"> 368</a></span>  <span class="keywordtype">int</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a30d75220b3fb99ea3b48f7f8098105e8">get_spectrum_ID</a>()</div>
<div class="line"><a name="l00369"></a><span class="lineno"> 369</span>  { <span class="keywordflow">return</span> spectrum_ID; }</div>
<div class="line"><a name="l00370"></a><span class="lineno"> 370</span> </div>
<div class="line"><a name="l00371"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#ad439ff344eee2c26ba2bd79d0c0f5ed9"> 371</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1SHFeature.html#ad439ff344eee2c26ba2bd79d0c0f5ed9">set_MASTER_ID</a>(<span class="keywordtype">int</span> IN)</div>
<div class="line"><a name="l00372"></a><span class="lineno"> 372</span>  { MASTER_ID = IN; }</div>
<div class="line"><a name="l00373"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a2332cb7b192f2b3196169f873afb2842"> 373</a></span>  <span class="keywordtype">int</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a2332cb7b192f2b3196169f873afb2842">get_MASTER_ID</a>()</div>
<div class="line"><a name="l00374"></a><span class="lineno"> 374</span>  { <span class="keywordflow">return</span> MASTER_ID; }</div>
<div class="line"><a name="l00375"></a><span class="lineno"> 375</span> </div>
<div class="line"><a name="l00376"></a><span class="lineno"> 376</span>  <span class="comment">// check how many matches</span></div>
<div class="line"><a name="l00377"></a><span class="lineno"> 377</span>  <span class="keywordtype">int</span> get_nb_common_match();</div>
<div class="line"><a name="l00378"></a><span class="lineno"> 378</span> </div>
<div class="line"><a name="l00379"></a><span class="lineno"> 379</span>  <span class="comment">// get/set the peak score</span></div>
<div class="line"><a name="l00380"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a09b10b1ddb672d8b60fea5790bae41eb"> 380</a></span>  <span class="keywordtype">double</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a09b10b1ddb672d8b60fea5790bae41eb">get_peak_score</a>()</div>
<div class="line"><a name="l00381"></a><span class="lineno"> 381</span>  { <span class="keywordflow">return</span> PEAK_SCORE; }</div>
<div class="line"><a name="l00382"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a9f2869f9e228747573d24e6b3cc82860"> 382</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a9f2869f9e228747573d24e6b3cc82860">set_peak_score</a>(<span class="keywordtype">double</span> in)</div>
<div class="line"><a name="l00383"></a><span class="lineno"> 383</span>  { PEAK_SCORE = in; }</div>
<div class="line"><a name="l00384"></a><span class="lineno"> 384</span> </div>
<div class="line"><a name="l00385"></a><span class="lineno"> 385</span>  <span class="comment">// get the molecular mass of the corrsponding peptide!</span></div>
<div class="line"><a name="l00386"></a><span class="lineno"> 386</span>  <span class="keywordtype">double</span> get_Molecular_Mass();</div>
<div class="line"><a name="l00387"></a><span class="lineno"> 387</span> </div>
<div class="line"><a name="l00388"></a><span class="lineno"> 388</span>  <span class="comment">// fetaure PI:</span></div>
<div class="line"><a name="l00389"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a6a7cd7d5bb36016111e6a8acb16c5f67"> 389</a></span>  <span class="keywordtype">double</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a6a7cd7d5bb36016111e6a8acb16c5f67">get_FEATURE_PI</a>()</div>
<div class="line"><a name="l00390"></a><span class="lineno"> 390</span>  { <span class="keywordflow">return</span> <a class="code" href="namespaceOpenMS_1_1Constants.html#a952eac791b596a61bba0a133a3bb439f">PI</a>; }</div>
<div class="line"><a name="l00391"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a60f504a6a951089dd7342bbc9c71695f"> 391</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a60f504a6a951089dd7342bbc9c71695f">set_FEATURE_PI</a>(<span class="keywordtype">double</span> IN)</div>
<div class="line"><a name="l00392"></a><span class="lineno"> 392</span>  { <a class="code" href="namespaceOpenMS_1_1Constants.html#a952eac791b596a61bba0a133a3bb439f">PI</a> = IN; }</div>
<div class="line"><a name="l00393"></a><span class="lineno"> 393</span> </div>
<div class="line"><a name="l00394"></a><span class="lineno"> 394</span>  <span class="comment">// check charge states, in cases where a feature was</span></div>
<div class="line"><a name="l00395"></a><span class="lineno"> 395</span>  <span class="comment">// created based on a MS2 trace, charge state is unknown ( = -1 )</span></div>
<div class="line"><a name="l00396"></a><span class="lineno"> 396</span>  <span class="comment">// -> derivce the charge state from the matched feature (if this is</span></div>
<div class="line"><a name="l00397"></a><span class="lineno"> 397</span>  <span class="comment">// also not -1</span></div>
<div class="line"><a name="l00398"></a><span class="lineno"> 398</span>  <span class="keywordtype">void</span> deriveChargeStates(<a class="code" href="classOpenMS_1_1SHFeature.html">SHFeature</a> *);</div>
<div class="line"><a name="l00399"></a><span class="lineno"> 399</span> </div>
<div class="line"><a name="l00400"></a><span class="lineno"> 400</span>  <span class="comment">// LC elution profile</span></div>
<div class="line"><a name="l00401"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a0d40c16f871fcf62b34dcd20830e4e46"> 401</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a0d40c16f871fcf62b34dcd20830e4e46">setLCelutionProfile</a>(<a class="code" href="classOpenMS_1_1FeatureLCProfile.html">FeatureLCProfile</a> * IN)</div>
<div class="line"><a name="l00402"></a><span class="lineno"> 402</span>  { LCprofile = IN; }</div>
<div class="line"><a name="l00403"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a4bc2635faa23856160df94a6715c181c"> 403</a></span>  <a class="code" href="classOpenMS_1_1FeatureLCProfile.html">FeatureLCProfile</a> * <a class="code" href="classOpenMS_1_1SHFeature.html#a4bc2635faa23856160df94a6715c181c">getLCelutionProfile</a>()</div>
<div class="line"><a name="l00404"></a><span class="lineno"> 404</span>  { <span class="keywordflow">return</span> LCprofile; }</div>
<div class="line"><a name="l00405"></a><span class="lineno"> 405</span> </div>
<div class="line"><a name="l00407"></a><span class="lineno"> 407</span>  <span class="comment">// parameters computed over matched features:</span></div>
<div class="line"><a name="l00408"></a><span class="lineno"> 408</span>  <span class="keywordtype">double</span> get_profile_retention_time();</div>
<div class="line"><a name="l00409"></a><span class="lineno"> 409</span>  <span class="keywordtype">double</span> get_profile_Molecular_Mass();</div>
<div class="line"><a name="l00410"></a><span class="lineno"> 410</span> </div>
<div class="line"><a name="l00412"></a><span class="lineno"> 412</span>  <span class="comment">// status if feature has been matched:</span></div>
<div class="line"><a name="l00413"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a34a3516ae041dc6bf3fd306433c1e65e"> 413</a></span>  <span class="keywordtype">bool</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a34a3516ae041dc6bf3fd306433c1e65e">get_feature_match_status</a>()</div>
<div class="line"><a name="l00414"></a><span class="lineno"> 414</span>  { <span class="keywordflow">return</span> feature_match_status; }</div>
<div class="line"><a name="l00415"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#abd48ca2cae9c26b9d3ba5d730816fe9b"> 415</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1SHFeature.html#abd48ca2cae9c26b9d3ba5d730816fe9b">set_feature_match_status</a>(<span class="keywordtype">bool</span> IN)</div>
<div class="line"><a name="l00416"></a><span class="lineno"> 416</span>  { feature_match_status = IN; }</div>
<div class="line"><a name="l00417"></a><span class="lineno"> 417</span> </div>
<div class="line"><a name="l00419"></a><span class="lineno"> 419</span>  <span class="comment">// access the MS2 feature</span></div>
<div class="line"><a name="l00420"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#ac089e093b761406f5da922d9245a3876"> 420</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1SHFeature.html#ac089e093b761406f5da922d9245a3876">addMS2Feature</a>(<a class="code" href="classOpenMS_1_1MS2Feature.html">MS2Feature</a> * in)</div>
<div class="line"><a name="l00421"></a><span class="lineno"> 421</span>  { MS2TraceFeature = <span class="keyword">new</span> <a class="code" href="classOpenMS_1_1MS2Feature.html">MS2Feature</a>(in); }</div>
<div class="line"><a name="l00422"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a5176a9e35b8d2512d210f3c713d96ada"> 422</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a5176a9e35b8d2512d210f3c713d96ada">removeMS2Feature</a>()</div>
<div class="line"><a name="l00423"></a><span class="lineno"> 423</span>  { <span class="keyword">delete</span> MS2TraceFeature; MS2TraceFeature = <a class="code" href="IsotopeWaveletParallelFor_8h.html#a070d2ce7b6bb7e5c05602aa8c308d0c4">NULL</a>; }</div>
<div class="line"><a name="l00424"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#aa7ef9204e566f279133a3b97955f7800"> 424</a></span>  <a class="code" href="classOpenMS_1_1MS2Feature.html">MS2Feature</a> * <a class="code" href="classOpenMS_1_1SHFeature.html#aa7ef9204e566f279133a3b97955f7800">getMS2Feature</a>()</div>
<div class="line"><a name="l00425"></a><span class="lineno"> 425</span>  { <span class="keywordflow">return</span> MS2TraceFeature; }</div>
<div class="line"><a name="l00426"></a><span class="lineno"> 426</span> </div>
<div class="line"><a name="l00427"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a4bb41c31d39852daaa13eb35f5f04b23"> 427</a></span>  <span class="keywordtype">double</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a4bb41c31d39852daaa13eb35f5f04b23">getSignalToNoise</a>()</div>
<div class="line"><a name="l00428"></a><span class="lineno"> 428</span>  { <span class="keywordflow">return</span> SignalToNoise; }</div>
<div class="line"><a name="l00429"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a2bc85b81fcc094bb64aa370e659293fa"> 429</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a2bc85b81fcc094bb64aa370e659293fa">setSignalToNoise</a>(<span class="keywordtype">double</span> in)</div>
<div class="line"><a name="l00430"></a><span class="lineno"> 430</span>  { SignalToNoise = in; }</div>
<div class="line"><a name="l00431"></a><span class="lineno"> 431</span> </div>
<div class="line"><a name="l00432"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#aa83a8032e3b8d6f300816a9b6e051b4c"> 432</a></span>  <span class="keywordtype">double</span> <a class="code" href="classOpenMS_1_1SHFeature.html#aa83a8032e3b8d6f300816a9b6e051b4c">getBackgroundNoiseLevel</a>()</div>
<div class="line"><a name="l00433"></a><span class="lineno"> 433</span>  { <span class="keywordflow">return</span> BackgroundNoise; }</div>
<div class="line"><a name="l00434"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#af1508bd4107380b505c883f79fe43432"> 434</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1SHFeature.html#af1508bd4107380b505c883f79fe43432">setBackgroundNoiseLevel</a>(<span class="keywordtype">double</span> in)</div>
<div class="line"><a name="l00435"></a><span class="lineno"> 435</span>  { BackgroundNoise = in; }</div>
<div class="line"><a name="l00436"></a><span class="lineno"> 436</span> </div>
<div class="line"><a name="l00438"></a><span class="lineno"> 438</span>  <span class="comment">// get static members:</span></div>
<div class="line"><a name="l00439"></a><span class="lineno"> 439</span>  <span class="comment">//static double get_MZ_TOL(){return MZ_TOL;};</span></div>
<div class="line"><a name="l00440"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SHFeature.html#a711e381780245aa2ec521a6b041e05a8"> 440</a></span>  <span class="keyword">static</span> <span class="keywordtype">double</span> <a class="code" href="classOpenMS_1_1SHFeature.html#a711e381780245aa2ec521a6b041e05a8">get_MONO_H</a>()</div>
<div class="line"><a name="l00441"></a><span class="lineno"> 441</span>  { <span class="keywordflow">return</span> _MONO_H; }</div>
<div class="line"><a name="l00442"></a><span class="lineno"> 442</span> </div>
<div class="line"><a name="l00443"></a><span class="lineno"> 443</span>  <span class="comment">// compare to masses at the PPM value and decided</span></div>
<div class="line"><a name="l00444"></a><span class="lineno"> 444</span>  <span class="comment">// if they fall into the m/z tolerance window</span></div>
<div class="line"><a name="l00445"></a><span class="lineno"> 445</span>  <span class="keyword">static</span> <span class="keywordtype">bool</span> compareFeatureMassValuesAtPPMLevel(<span class="keywordtype">double</span>, <span class="keywordtype">double</span>);</div>
<div class="line"><a name="l00446"></a><span class="lineno"> 446</span> </div>
<div class="line"><a name="l00447"></a><span class="lineno"> 447</span>  <span class="comment">// get the masse error at the PPM value</span></div>
<div class="line"><a name="l00448"></a><span class="lineno"> 448</span>  <span class="keyword">static</span> <span class="keywordtype">double</span> getFeatureMassErrorAtPPMLevel(<span class="keywordtype">double</span>);</div>
<div class="line"><a name="l00449"></a><span class="lineno"> 449</span> </div>
<div class="line"><a name="l00450"></a><span class="lineno"> 450</span>  };</div>
<div class="line"><a name="l00451"></a><span class="lineno"> 451</span> </div>
<div class="line"><a name="l00452"></a><span class="lineno"> 452</span> } <span class="comment">// ns</span></div>
<div class="line"><a name="l00453"></a><span class="lineno"> 453</span> </div>
<div class="line"><a name="l00454"></a><span class="lineno"> 454</span> <span class="preprocessor">#endif // OPENMS_TRANSFORMATIONS_FEATUREFINDER_SUPERHIRN_SHFEATURE_H</span></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a9ca5357801eda85eaf890d09b6717549"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a9ca5357801eda85eaf890d09b6717549">OpenMS::SHFeature::TR_START</a></div><div class="ttdeci">double TR_START</div><div class="ttdef"><b>Definition:</b> SHFeature.h:122</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a01ad4c6b072d84eff259cc71fe58cf6a"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a01ad4c6b072d84eff259cc71fe58cf6a">OpenMS::SHFeature::get_MS2_SCAN_LIST_END</a></div><div class="ttdeci">std::map< double, std::vector< MS2Info > >::iterator get_MS2_SCAN_LIST_END()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:283</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a1d7b255693636bb6128eb0be962e9c41"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a1d7b255693636bb6128eb0be962e9c41">OpenMS::SHFeature::get_retention_time_START</a></div><div class="ttdeci">double get_retention_time_START()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:333</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a9fa3d2274e32a6a12d25b6a02736ff75"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a9fa3d2274e32a6a12d25b6a02736ff75">OpenMS::SHFeature::get_retention_time_END</a></div><div class="ttdeci">double get_retention_time_END()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:337</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a4e36555c8609254715858261f34dfd94"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a4e36555c8609254715858261f34dfd94">OpenMS::SHFeature::PI</a></div><div class="ttdeci">double PI</div><div class="ttdef"><b>Definition:</b> SHFeature.h:82</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_afb346e3eacfbf339dfa724c04b65b45d"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#afb346e3eacfbf339dfa724c04b65b45d">OpenMS::SHFeature::MONO_MZ_ORIGINAL</a></div><div class="ttdeci">double MONO_MZ_ORIGINAL</div><div class="ttdef"><b>Definition:</b> SHFeature.h:109</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_aa29c289933f023ffda18377012e2f410"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#aa29c289933f023ffda18377012e2f410">OpenMS::SHFeature::set_apex_peak_intensity</a></div><div class="ttdeci">void set_apex_peak_intensity(double in)</div><div class="ttdef"><b>Definition:</b> SHFeature.h:310</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_af1508bd4107380b505c883f79fe43432"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#af1508bd4107380b505c883f79fe43432">OpenMS::SHFeature::setBackgroundNoiseLevel</a></div><div class="ttdeci">void setBackgroundNoiseLevel(double in)</div><div class="ttdef"><b>Definition:</b> SHFeature.h:434</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a9f2869f9e228747573d24e6b3cc82860"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a9f2869f9e228747573d24e6b3cc82860">OpenMS::SHFeature::set_peak_score</a></div><div class="ttdeci">void set_peak_score(double in)</div><div class="ttdef"><b>Definition:</b> SHFeature.h:382</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_afab1765a997ac4a2b712fb2abbfa4bf6"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#afab1765a997ac4a2b712fb2abbfa4bf6">OpenMS::SHFeature::scan_end</a></div><div class="ttdeci">int scan_end</div><div class="ttdef"><b>Definition:</b> SHFeature.h:69</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a6ec0649cc421c915cfd2e54407ccf60d"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a6ec0649cc421c915cfd2e54407ccf60d">OpenMS::SHFeature::get_match_list</a></div><div class="ttdeci">std::map< int, SHFeature > get_match_list()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:196</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_abf057eea0474bbd48c969f3cd1d08a53"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#abf057eea0474bbd48c969f3cd1d08a53">OpenMS::SHFeature::get_SQ</a></div><div class="ttdeci">std::string get_SQ()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:255</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a09b10b1ddb672d8b60fea5790bae41eb"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a09b10b1ddb672d8b60fea5790bae41eb">OpenMS::SHFeature::get_peak_score</a></div><div class="ttdeci">double get_peak_score()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:380</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a71cfac4a297ba88188eb63e73be4d26c"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a71cfac4a297ba88188eb63e73be4d26c">OpenMS::SHFeature::get_MS2_scan</a></div><div class="ttdeci">int get_MS2_scan()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:275</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a7d637c5b2a3dbd817da313c48f6906b7"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a7d637c5b2a3dbd817da313c48f6906b7">OpenMS::SHFeature::_MONO_H</a></div><div class="ttdeci">static double _MONO_H</div><div class="ttdef"><b>Definition:</b> SHFeature.h:98</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a6a7cd7d5bb36016111e6a8acb16c5f67"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a6a7cd7d5bb36016111e6a8acb16c5f67">OpenMS::SHFeature::get_FEATURE_PI</a></div><div class="ttdeci">double get_FEATURE_PI()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:389</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_ae1c866c0cebfab602252903534bd527f"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#ae1c866c0cebfab602252903534bd527f">OpenMS::SHFeature::alignment_error_down</a></div><div class="ttdeci">double alignment_error_down</div><div class="ttdef"><b>Definition:</b> SHFeature.h:79</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a32524fbbb103c7c2e5b500a1d4ad95b1"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a32524fbbb103c7c2e5b500a1d4ad95b1">OpenMS::SHFeature::BackgroundNoise</a></div><div class="ttdeci">double BackgroundNoise</div><div class="ttdef"><b>Definition:</b> SHFeature.h:74</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a1cf41a4cda12031a2d98115ec32ea94c"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a1cf41a4cda12031a2d98115ec32ea94c">OpenMS::SHFeature::set_retention_time_START</a></div><div class="ttdeci">void set_retention_time_START(double IN)</div><div class="ttdef"><b>Definition:</b> SHFeature.h:335</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a10b390fbf98ad9d8483221325db3d91e"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a10b390fbf98ad9d8483221325db3d91e">OpenMS::SHFeature::get_SQ</a></div><div class="ttdeci">std::string get_SQ(double T)</div><div class="ttdef"><b>Definition:</b> SHFeature.h:257</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_adaed4822839840a6d627af5ffb68f1bd"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#adaed4822839840a6d627af5ffb68f1bd">OpenMS::SHFeature::check_MS2_empty</a></div><div class="ttdeci">bool check_MS2_empty()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:159</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a5a56385f33464d89e74e221536a1a06f"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a5a56385f33464d89e74e221536a1a06f">OpenMS::SHFeature::get_AC</a></div><div class="ttdeci">std::string get_AC(double T)</div><div class="ttdef"><b>Definition:</b> SHFeature.h:249</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a148e5431860d8e21c27665460e4fed58"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a148e5431860d8e21c27665460e4fed58">OpenMS::SHFeature::get_match_list_REFERENCE</a></div><div class="ttdeci">std::map< int, SHFeature > * get_match_list_REFERENCE()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:194</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a39961677d2c98f97c21bc47077c05e34"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a39961677d2c98f97c21bc47077c05e34">OpenMS::SHFeature::get_SCORE_HOLDER</a></div><div class="ttdeci">double get_SCORE_HOLDER()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:326</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_ad0cf8d020e7caac3c28bb16d01087730"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#ad0cf8d020e7caac3c28bb16d01087730">OpenMS::SHFeature::normalize_peak_area_by_factor</a></div><div class="ttdeci">void normalize_peak_area_by_factor(double factor)</div><div class="ttdef"><b>Definition:</b> SHFeature.h:312</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a18c68cf2f6880ce89d27ea32fbc38372"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a18c68cf2f6880ce89d27ea32fbc38372">OpenMS::SHFeature::get_scan_number</a></div><div class="ttdeci">int get_scan_number()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:286</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_acb3650648136be91a11a842016e7e737"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#acb3650648136be91a11a842016e7e737">OpenMS::SHFeature::set_MZ_END</a></div><div class="ttdeci">void set_MZ_END(double IN)</div><div class="ttdef"><b>Definition:</b> SHFeature.h:240</div></div>
<div class="ttc" id="IsotopeWaveletParallelFor_8h_html_a070d2ce7b6bb7e5c05602aa8c308d0c4"><div class="ttname"><a href="IsotopeWaveletParallelFor_8h.html#a070d2ce7b6bb7e5c05602aa8c308d0c4">NULL</a></div><div class="ttdeci">#define NULL</div><div class="ttdef"><b>Definition:</b> IsotopeWaveletParallelFor.h:41</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_ad7c5d8a153babb07d78f522cd20c0223"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#ad7c5d8a153babb07d78f522cd20c0223">OpenMS::SHFeature::get_MOD_SQ</a></div><div class="ttdeci">std::string get_MOD_SQ(double T)</div><div class="ttdef"><b>Definition:</b> SHFeature.h:265</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a4b629e2c54cd0c1b2e40177fdf93d8ea"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a4b629e2c54cd0c1b2e40177fdf93d8ea">OpenMS::SHFeature::check_AC</a></div><div class="ttdeci">bool check_AC(std::string IN, double T)</div><div class="ttdef"><b>Definition:</b> SHFeature.h:253</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_ab49a1fff73c30ee456b289873e688f3e"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#ab49a1fff73c30ee456b289873e688f3e">OpenMS::SHFeature::MS2_SCANS</a></div><div class="ttdeci">std::map< double, std::vector< MS2Info > > MS2_SCANS</div><div class="ttdef"><b>Definition:</b> SHFeature.h:62</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a0c7f15c91436e3cb17b3f641e864ac62"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a0c7f15c91436e3cb17b3f641e864ac62">OpenMS::SHFeature::get_MOD_SQ</a></div><div class="ttdeci">std::string get_MOD_SQ()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:263</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a0d40c16f871fcf62b34dcd20830e4e46"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a0d40c16f871fcf62b34dcd20830e4e46">OpenMS::SHFeature::setLCelutionProfile</a></div><div class="ttdeci">void setLCelutionProfile(FeatureLCProfile *IN)</div><div class="ttdef"><b>Definition:</b> SHFeature.h:401</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_ab059e21bb38af0cb61c0e07e69f7e378"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#ab059e21bb38af0cb61c0e07e69f7e378">OpenMS::SHFeature::TR_END</a></div><div class="ttdeci">double TR_END</div><div class="ttdef"><b>Definition:</b> SHFeature.h:123</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a84ac067cb1f3a41a106ba8135f655521"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a84ac067cb1f3a41a106ba8135f655521">OpenMS::SHFeature::getFeatureExtraInformation</a></div><div class="ttdeci">std::string getFeatureExtraInformation()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:189</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_aa217e5c2e4dc968a9144b805077457d3"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#aa217e5c2e4dc968a9144b805077457d3">OpenMS::SHFeature::get_MS2_SCANS_SIZE</a></div><div class="ttdeci">int get_MS2_SCANS_SIZE()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:169</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_af932f92e19797e102406d9abd4dceaf3"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#af932f92e19797e102406d9abd4dceaf3">OpenMS::SHFeature::set_raw_MZ</a></div><div class="ttdeci">void set_raw_MZ(double IN)</div><div class="ttdef"><b>Definition:</b> SHFeature.h:349</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_af20ba7314bb42bd1bf86e05b1c809ab3"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#af20ba7314bb42bd1bf86e05b1c809ab3">OpenMS::SHFeature::get_THEO_MZ</a></div><div class="ttdeci">double get_THEO_MZ()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:243</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_afe1a4ab1d602a4d2d8c45ef3969326f2"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#afe1a4ab1d602a4d2d8c45ef3969326f2">OpenMS::SHFeature::scan_apex</a></div><div class="ttdeci">int scan_apex</div><div class="ttdef"><b>Definition:</b> SHFeature.h:67</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a8c0542399672c48cbb5483e9677787be"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a8c0542399672c48cbb5483e9677787be">OpenMS::SHFeature::get_retention_time</a></div><div class="ttdeci">double get_retention_time()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:329</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_affa4ca2d08a0e48544ddd23a66245da4"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#affa4ca2d08a0e48544ddd23a66245da4">OpenMS::SHFeature::get_MZ_START</a></div><div class="ttdeci">double get_MZ_START()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:234</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a4e6ba4757e8935e072c95fa81e2d66c9"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a4e6ba4757e8935e072c95fa81e2d66c9">OpenMS::SHFeature::set_SCORE_HOLDER</a></div><div class="ttdeci">void set_SCORE_HOLDER(double IN)</div><div class="ttdef"><b>Definition:</b> SHFeature.h:324</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_abffae27e4de5afc4215fbf81650e0fb5"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#abffae27e4de5afc4215fbf81650e0fb5">OpenMS::SHFeature::get_THEO_MZ</a></div><div class="ttdeci">double get_THEO_MZ(double T)</div><div class="ttdef"><b>Definition:</b> SHFeature.h:245</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_ad439ff344eee2c26ba2bd79d0c0f5ed9"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#ad439ff344eee2c26ba2bd79d0c0f5ed9">OpenMS::SHFeature::set_MASTER_ID</a></div><div class="ttdeci">void set_MASTER_ID(int IN)</div><div class="ttdef"><b>Definition:</b> SHFeature.h:371</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_adaf208ac9da28efbf9ac7178e8496b5c"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#adaf208ac9da28efbf9ac7178e8496b5c">OpenMS::SHFeature::set_MZ</a></div><div class="ttdeci">void set_MZ(double in)</div><div class="ttdef"><b>Definition:</b> SHFeature.h:232</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a8e7f45ed81c525f4071cf99f6c0dc51b"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a8e7f45ed81c525f4071cf99f6c0dc51b">OpenMS::SHFeature::setFeatureExtraInformation</a></div><div class="ttdeci">void setFeatureExtraInformation(std::string in)</div><div class="ttdef"><b>Definition:</b> SHFeature.h:187</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a702505a6e19d6a6a8a45e9ab226f0476"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a702505a6e19d6a6a8a45e9ab226f0476">OpenMS::SHFeature::set_scan_start</a></div><div class="ttdeci">void set_scan_start(int IN)</div><div class="ttdef"><b>Definition:</b> SHFeature.h:292</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a0932b29f54649f0feb6aa34d23f7f341"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a0932b29f54649f0feb6aa34d23f7f341">OpenMS::SHFeature::set_scan_end</a></div><div class="ttdeci">void set_scan_end(int IN)</div><div class="ttdef"><b>Definition:</b> SHFeature.h:296</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a7d03439c16467139a207c674ba61fa41"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a7d03439c16467139a207c674ba61fa41">OpenMS::SHFeature::MONO_MZ_START</a></div><div class="ttdeci">double MONO_MZ_START</div><div class="ttdef"><b>Definition:</b> SHFeature.h:107</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a4bc2635faa23856160df94a6715c181c"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a4bc2635faa23856160df94a6715c181c">OpenMS::SHFeature::getLCelutionProfile</a></div><div class="ttdeci">FeatureLCProfile * getLCelutionProfile()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:403</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_ad8178edd10a25841f5278b468aabe5fb"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#ad8178edd10a25841f5278b468aabe5fb">OpenMS::SHFeature::removeAllMS2Information</a></div><div class="ttdeci">void removeAllMS2Information()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:164</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_ab3eaf106a8a5ecb3dc2d6c1e9740d0e2"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#ab3eaf106a8a5ecb3dc2d6c1e9740d0e2">OpenMS::SHFeature::check_AC</a></div><div class="ttdeci">bool check_AC(std::string IN)</div><div class="ttdef"><b>Definition:</b> SHFeature.h:251</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a2eb7f79acd2ffa4be4d3cccf149ec646"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a2eb7f79acd2ffa4be4d3cccf149ec646">OpenMS::SHFeature::get_matching_nb</a></div><div class="ttdeci">int get_matching_nb()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:219</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a4f4b3d658fa78c6ae3952d0678d66191"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a4f4b3d658fa78c6ae3952d0678d66191">OpenMS::SHFeature::get_TOTAL_SQ</a></div><div class="ttdeci">std::string get_TOTAL_SQ()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:259</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a4b490cc4b4c5b509e03b5e4743724cdb"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a4b490cc4b4c5b509e03b5e4743724cdb">OpenMS::SHFeature::feature_ID</a></div><div class="ttdeci">int feature_ID</div><div class="ttdef"><b>Definition:</b> SHFeature.h:125</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a587d777f7893a54bd69c503de56792d1"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a587d777f7893a54bd69c503de56792d1">OpenMS::SHFeature::get_scan_start</a></div><div class="ttdeci">int get_scan_start()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:290</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_ac864f0cac891260d78becdc5e2ba8f84"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#ac864f0cac891260d78becdc5e2ba8f84">OpenMS::SHFeature::apex_peak_intensity</a></div><div class="ttdeci">double apex_peak_intensity</div><div class="ttdef"><b>Definition:</b> SHFeature.h:71</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a2bc85b81fcc094bb64aa370e659293fa"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a2bc85b81fcc094bb64aa370e659293fa">OpenMS::SHFeature::setSignalToNoise</a></div><div class="ttdeci">void setSignalToNoise(double in)</div><div class="ttdef"><b>Definition:</b> SHFeature.h:429</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a2bd50c204828b4a30a572812e28b8134"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a2bd50c204828b4a30a572812e28b8134">OpenMS::SHFeature::spectrum_ID</a></div><div class="ttdeci">int spectrum_ID</div><div class="ttdef"><b>Definition:</b> SHFeature.h:86</div></div>
<div class="ttc" id="classOpenMS_1_1MS2Feature_html"><div class="ttname"><a href="classOpenMS_1_1MS2Feature.html">OpenMS::MS2Feature</a></div><div class="ttdef"><b>Definition:</b> MS2Feature.h:54</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a7d2acdfa1fae5a1a63e2544d992504bc"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a7d2acdfa1fae5a1a63e2544d992504bc">OpenMS::SHFeature::PEAK_SCORE</a></div><div class="ttdeci">double PEAK_SCORE</div><div class="ttdef"><b>Definition:</b> SHFeature.h:72</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a449cfacbd071797a32e3303d838664cd"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a449cfacbd071797a32e3303d838664cd">OpenMS::SHFeature::erase_match_list</a></div><div class="ttdeci">void erase_match_list()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:211</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a60f504a6a951089dd7342bbc9c71695f"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a60f504a6a951089dd7342bbc9c71695f">OpenMS::SHFeature::set_FEATURE_PI</a></div><div class="ttdeci">void set_FEATURE_PI(double IN)</div><div class="ttdef"><b>Definition:</b> SHFeature.h:391</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_acf9cc8b997b6cb4566cadf85c1c527d4"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#acf9cc8b997b6cb4566cadf85c1c527d4">OpenMS::SHFeature::MONO_MZ</a></div><div class="ttdeci">double MONO_MZ</div><div class="ttdef"><b>Definition:</b> SHFeature.h:121</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a4b16306ef79505f6efdf78c92998c3ed"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a4b16306ef79505f6efdf78c92998c3ed">OpenMS::SHFeature::get_MS2_SCAN_MAP</a></div><div class="ttdeci">std::map< double, std::vector< MS2Info > > * get_MS2_SCAN_MAP()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:174</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a2d2e02e5957b3548e0aee6c7782ea2c9"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a2d2e02e5957b3548e0aee6c7782ea2c9">OpenMS::SHFeature::SignalToNoise</a></div><div class="ttdeci">double SignalToNoise</div><div class="ttdef"><b>Definition:</b> SHFeature.h:73</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_aa239132694c57d4a11e49a5f4d3d25a4"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#aa239132694c57d4a11e49a5f4d3d25a4">OpenMS::SHFeature::TR_APEX</a></div><div class="ttdeci">double TR_APEX</div><div class="ttdef"><b>Definition:</b> SHFeature.h:106</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a082a347ebfbc6c2787d1cfc63151144b"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a082a347ebfbc6c2787d1cfc63151144b">OpenMS::SHFeature::set_retention_time_END</a></div><div class="ttdeci">void set_retention_time_END(double IN)</div><div class="ttdef"><b>Definition:</b> SHFeature.h:339</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a411137d210247211b05be0f8a1f4db54"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a411137d210247211b05be0f8a1f4db54">OpenMS::SHFeature::get_match_list_end</a></div><div class="ttdeci">std::map< int, SHFeature >::iterator get_match_list_end()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:200</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_aa4275085442f2817b042742ef117f44e"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#aa4275085442f2817b042742ef117f44e">OpenMS::SHFeature::get_TOTAL_SQ</a></div><div class="ttdeci">std::string get_TOTAL_SQ(double T)</div><div class="ttdef"><b>Definition:</b> SHFeature.h:261</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a9863b40127f67b77ecd3e47b31e24fb7"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a9863b40127f67b77ecd3e47b31e24fb7">OpenMS::SHFeature::matched_feature_list</a></div><div class="ttdeci">std::map< int, SHFeature > matched_feature_list</div><div class="ttdef"><b>Definition:</b> SHFeature.h:103</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_ab89d41ecea95fdfe48a60fb13470610a"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#ab89d41ecea95fdfe48a60fb13470610a">OpenMS::SHFeature::set_feature_ID</a></div><div class="ttdeci">void set_feature_ID(int IN)</div><div class="ttdef"><b>Definition:</b> SHFeature.h:353</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a64f51b488ac9ef89123e042fcf0e7c7c"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a64f51b488ac9ef89123e042fcf0e7c7c">OpenMS::SHFeature::featureExtraInformation</a></div><div class="ttdeci">std::string featureExtraInformation</div><div class="ttdef"><b>Definition:</b> SHFeature.h:91</div></div>
<div class="ttc" id="classOpenMS_1_1FeatureLCProfile_html"><div class="ttname"><a href="classOpenMS_1_1FeatureLCProfile.html">OpenMS::FeatureLCProfile</a></div><div class="ttdef"><b>Definition:</b> FeatureLCProfile.h:66</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a6d2c1f22a2dbbc2c2bf2e5841183776f"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a6d2c1f22a2dbbc2c2bf2e5841183776f">OpenMS::SHFeature::get_MS2_scan</a></div><div class="ttdeci">int get_MS2_scan(double T)</div><div class="ttdef"><b>Definition:</b> SHFeature.h:277</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a0855b9c3d594748c01179908ef0192a8"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a0855b9c3d594748c01179908ef0192a8">OpenMS::SHFeature::scan_start</a></div><div class="ttdeci">int scan_start</div><div class="ttdef"><b>Definition:</b> SHFeature.h:68</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_abd48ca2cae9c26b9d3ba5d730816fe9b"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#abd48ca2cae9c26b9d3ba5d730816fe9b">OpenMS::SHFeature::set_feature_match_status</a></div><div class="ttdeci">void set_feature_match_status(bool IN)</div><div class="ttdef"><b>Definition:</b> SHFeature.h:415</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_aa4239082783d826109e0879fdfaed3a7"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#aa4239082783d826109e0879fdfaed3a7">OpenMS::SHFeature::find_match_by_id</a></div><div class="ttdeci">std::map< int, SHFeature >::iterator find_match_by_id(int ID)</div><div class="ttdef"><b>Definition:</b> SHFeature.h:202</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a6e33f15077fbd54ec8ee091fe49fde76"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a6e33f15077fbd54ec8ee091fe49fde76">OpenMS::SHFeature::get_MZ</a></div><div class="ttdeci">double get_MZ()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:230</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_ad2d77de27f14cc62f3c72c489a098db6"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#ad2d77de27f14cc62f3c72c489a098db6">OpenMS::SHFeature::set_MZ_START</a></div><div class="ttdeci">void set_MZ_START(double IN)</div><div class="ttdef"><b>Definition:</b> SHFeature.h:236</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_ad6ef8d8ce51e78fcb7a10d8a5e353820"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#ad6ef8d8ce51e78fcb7a10d8a5e353820">OpenMS::SHFeature::set_raw_retention_time_apex</a></div><div class="ttdeci">void set_raw_retention_time_apex(double IN)</div><div class="ttdef"><b>Definition:</b> SHFeature.h:345</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a45fb842029ab098fcca734f94658b770"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a45fb842029ab098fcca734f94658b770">OpenMS::SHFeature::get_MS2_SCANS_START</a></div><div class="ttdeci">std::map< double, std::vector< MS2Info > >::iterator get_MS2_SCANS_START()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:179</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a9f456c9a97494559f25446febcf62f75"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a9f456c9a97494559f25446febcf62f75">OpenMS::SHFeature::get_alignment_error_up</a></div><div class="ttdeci">double get_alignment_error_up()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:315</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a201f89bb5d1283a36b5276b67078fc53"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a201f89bb5d1283a36b5276b67078fc53">OpenMS::SHFeature::set_alignment_error_down</a></div><div class="ttdeci">void set_alignment_error_down(double IN)</div><div class="ttdef"><b>Definition:</b> SHFeature.h:321</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_af6d5ab3629ea17ec17a1733f29f8a0d9"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#af6d5ab3629ea17ec17a1733f29f8a0d9">OpenMS::SHFeature::TR</a></div><div class="ttdeci">double TR</div><div class="ttdef"><b>Definition:</b> SHFeature.h:120</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a88bb99e59721c66f856bbad1be5bb253"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a88bb99e59721c66f856bbad1be5bb253">OpenMS::SHFeature::LCprofile</a></div><div class="ttdeci">FeatureLCProfile * LCprofile</div><div class="ttdef"><b>Definition:</b> SHFeature.h:95</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_afcd5909fdc9d7051076aa7179a217b3d"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#afcd5909fdc9d7051076aa7179a217b3d">OpenMS::SHFeature::get_MS2_SCAN_LIST</a></div><div class="ttdeci">std::map< double, std::vector< MS2Info > > * get_MS2_SCAN_LIST()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:279</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_ae7a1a66bf017082d76cf96c65310faf3"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#ae7a1a66bf017082d76cf96c65310faf3">OpenMS::SHFeature::set_spectrum_ID</a></div><div class="ttdeci">void set_spectrum_ID(int IN)</div><div class="ttdef"><b>Definition:</b> SHFeature.h:358</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a20f37f1701425aa459d6e94ed4021b7c"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a20f37f1701425aa459d6e94ed4021b7c">OpenMS::SHFeature::set_retention_time</a></div><div class="ttdeci">void set_retention_time(double IN)</div><div class="ttdef"><b>Definition:</b> SHFeature.h:331</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a9817411f20f7f8f2b1143ddd1af71f6f"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a9817411f20f7f8f2b1143ddd1af71f6f">OpenMS::SHFeature::MASTER_ID</a></div><div class="ttdeci">int MASTER_ID</div><div class="ttdef"><b>Definition:</b> SHFeature.h:87</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a5176a9e35b8d2512d210f3c713d96ada"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a5176a9e35b8d2512d210f3c713d96ada">OpenMS::SHFeature::removeMS2Feature</a></div><div class="ttdeci">void removeMS2Feature()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:422</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a7cc0ff90acee6ff6f42056737fb78a22"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a7cc0ff90acee6ff6f42056737fb78a22">OpenMS::SHFeature::get_charge_state</a></div><div class="ttdeci">int get_charge_state()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:298</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a82b64922c8da6a6c7ac603325bb7e3d2"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a82b64922c8da6a6c7ac603325bb7e3d2">OpenMS::SHFeature::get_MZ_END</a></div><div class="ttdeci">double get_MZ_END()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:238</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a444645475e458ad35dcd3c375a8672ac"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a444645475e458ad35dcd3c375a8672ac">OpenMS::SHFeature::get_MS2_SCANS_END</a></div><div class="ttdeci">std::map< double, std::vector< MS2Info > >::iterator get_MS2_SCANS_END()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:181</div></div>
<div class="ttc" id="namespaceOpenMS_1_1Constants_html_a952eac791b596a61bba0a133a3bb439f"><div class="ttname"><a href="namespaceOpenMS_1_1Constants.html#a952eac791b596a61bba0a133a3bb439f">OpenMS::Constants::PI</a></div><div class="ttdeci">const double PI</div><div class="ttdoc">PI. </div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a9859dad25e54a0f0c6754fbf8697dcea"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a9859dad25e54a0f0c6754fbf8697dcea">OpenMS::SHFeature::get_feature_ID</a></div><div class="ttdeci">int get_feature_ID()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:355</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a2332cb7b192f2b3196169f873afb2842"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a2332cb7b192f2b3196169f873afb2842">OpenMS::SHFeature::get_MASTER_ID</a></div><div class="ttdeci">int get_MASTER_ID()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:373</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a8b004a39a00f13d3901efabe41df3952"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a8b004a39a00f13d3901efabe41df3952">OpenMS::SHFeature::get_raw_retention_time_apex</a></div><div class="ttdeci">double get_raw_retention_time_apex()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:343</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a02ccd1829c2ab066295c681b409fa47b"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a02ccd1829c2ab066295c681b409fa47b">OpenMS::SHFeature::get_MS2_TYPE_TAG</a></div><div class="ttdeci">std::string get_MS2_TYPE_TAG(double T)</div><div class="ttdef"><b>Definition:</b> SHFeature.h:273</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a82835da146c0afd4a0f34187ad2f3966"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a82835da146c0afd4a0f34187ad2f3966">OpenMS::SHFeature::MS2TraceFeature</a></div><div class="ttdeci">MS2Feature * MS2TraceFeature</div><div class="ttdef"><b>Definition:</b> SHFeature.h:113</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_afb2c107b1e9945827c97121ab8f751c2"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#afb2c107b1e9945827c97121ab8f751c2">OpenMS::SHFeature::set_alignment_error_up</a></div><div class="ttdeci">void set_alignment_error_up(double IN)</div><div class="ttdef"><b>Definition:</b> SHFeature.h:317</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_ab1e0cab3d6768e3534193a4a5ac67aea"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#ab1e0cab3d6768e3534193a4a5ac67aea">OpenMS::SHFeature::_MONO_O</a></div><div class="ttdeci">static double _MONO_O</div><div class="ttdef"><b>Definition:</b> SHFeature.h:99</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a34a3516ae041dc6bf3fd306433c1e65e"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a34a3516ae041dc6bf3fd306433c1e65e">OpenMS::SHFeature::get_feature_match_status</a></div><div class="ttdeci">bool get_feature_match_status()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:413</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_aff853ca2fa50554d2d5cc94df339fae2"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#aff853ca2fa50554d2d5cc94df339fae2">OpenMS::SHFeature::get_MS2_SCAN_LIST_START</a></div><div class="ttdeci">std::map< double, std::vector< MS2Info > >::iterator get_MS2_SCAN_LIST_START()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:281</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a9796d06d821e497a9c78e522b350761f"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a9796d06d821e497a9c78e522b350761f">OpenMS::SHFeature::MONO_MZ_END</a></div><div class="ttdeci">double MONO_MZ_END</div><div class="ttdef"><b>Definition:</b> SHFeature.h:108</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a90c221cf98cba1a48bf761bedf49b6b6"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a90c221cf98cba1a48bf761bedf49b6b6">OpenMS::SHFeature::get_apex_peak_intensity</a></div><div class="ttdeci">double get_apex_peak_intensity()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:308</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a00c914ac9e98d47f9ee092e6236c4eef"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a00c914ac9e98d47f9ee092e6236c4eef">OpenMS::SHFeature::get_raw_MZ</a></div><div class="ttdeci">double get_raw_MZ()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:347</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a924791374fc40450bf1fa49859d7b832"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a924791374fc40450bf1fa49859d7b832">OpenMS::SHFeature::set_scan_number</a></div><div class="ttdeci">void set_scan_number(int IN)</div><div class="ttdef"><b>Definition:</b> SHFeature.h:288</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a72c536debc13f5c44ad42ea696d55adc"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a72c536debc13f5c44ad42ea696d55adc">OpenMS::SHFeature::get_pep_prob</a></div><div class="ttdeci">double get_pep_prob(double T)</div><div class="ttdef"><b>Definition:</b> SHFeature.h:269</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_ae2e9f8c3eadcc51e0bebbf433dc62f5e"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#ae2e9f8c3eadcc51e0bebbf433dc62f5e">OpenMS::SHFeature::set_charge_state</a></div><div class="ttdeci">void set_charge_state(int IN)</div><div class="ttdef"><b>Definition:</b> SHFeature.h:300</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a711e381780245aa2ec521a6b041e05a8"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a711e381780245aa2ec521a6b041e05a8">OpenMS::SHFeature::get_MONO_H</a></div><div class="ttdeci">static double get_MONO_H()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:440</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_af987d88728f330c662831d206b299f05"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#af987d88728f330c662831d206b299f05">OpenMS::SHFeature::set_peak_area</a></div><div class="ttdeci">void set_peak_area(float IN)</div><div class="ttdef"><b>Definition:</b> SHFeature.h:302</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_aa83a8032e3b8d6f300816a9b6e051b4c"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#aa83a8032e3b8d6f300816a9b6e051b4c">OpenMS::SHFeature::getBackgroundNoiseLevel</a></div><div class="ttdeci">double getBackgroundNoiseLevel()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:432</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a2f9b87c56d7e8ae66b931984bc8f40be"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a2f9b87c56d7e8ae66b931984bc8f40be">OpenMS::SHFeature::get_replicate_match_nb</a></div><div class="ttdeci">int get_replicate_match_nb()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:217</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_aa7ef9204e566f279133a3b97955f7800"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#aa7ef9204e566f279133a3b97955f7800">OpenMS::SHFeature::getMS2Feature</a></div><div class="ttdeci">MS2Feature * getMS2Feature()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:424</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_aea807d4cfb6795df87a8c18d5c002768"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#aea807d4cfb6795df87a8c18d5c002768">OpenMS::SHFeature::total_peak_area</a></div><div class="ttdeci">double total_peak_area</div><div class="ttdef"><b>Definition:</b> SHFeature.h:70</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a30d75220b3fb99ea3b48f7f8098105e8"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a30d75220b3fb99ea3b48f7f8098105e8">OpenMS::SHFeature::get_spectrum_ID</a></div><div class="ttdeci">int get_spectrum_ID()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:368</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a6de50b2fa3bed12a08b683c71626d22d"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a6de50b2fa3bed12a08b683c71626d22d">OpenMS::SHFeature::charge_state</a></div><div class="ttdeci">int charge_state</div><div class="ttdef"><b>Definition:</b> SHFeature.h:124</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_acc7206e6881e8d9cb434cc9aec535607"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#acc7206e6881e8d9cb434cc9aec535607">OpenMS::SHFeature::get_AC</a></div><div class="ttdeci">std::string get_AC()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:247</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html">OpenMS::SHFeature</a></div><div class="ttdef"><b>Definition:</b> SHFeature.h:51</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_ac089e093b761406f5da922d9245a3876"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#ac089e093b761406f5da922d9245a3876">OpenMS::SHFeature::addMS2Feature</a></div><div class="ttdeci">void addMS2Feature(MS2Feature *in)</div><div class="ttdef"><b>Definition:</b> SHFeature.h:420</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a80ec63435b120c76cfd6f0d237df0c1e"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a80ec63435b120c76cfd6f0d237df0c1e">OpenMS::SHFeature::alignment_error_up</a></div><div class="ttdeci">double alignment_error_up</div><div class="ttdef"><b>Definition:</b> SHFeature.h:78</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_aafcafb19373886e77bede82fe1c4b090"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#aafcafb19373886e77bede82fe1c4b090">OpenMS::SHFeature::feature_match_status</a></div><div class="ttdeci">bool feature_match_status</div><div class="ttdef"><b>Definition:</b> SHFeature.h:81</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_ae4ca4d3986e6f48e580fec832e74c2b4"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#ae4ca4d3986e6f48e580fec832e74c2b4">OpenMS::SHFeature::get_MS2_TYPE_TAG</a></div><div class="ttdeci">std::string get_MS2_TYPE_TAG()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:271</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a4bb41c31d39852daaa13eb35f5f04b23"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a4bb41c31d39852daaa13eb35f5f04b23">OpenMS::SHFeature::getSignalToNoise</a></div><div class="ttdeci">double getSignalToNoise()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:427</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a2f0f29a0615e015031347a2417474200"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a2f0f29a0615e015031347a2417474200">OpenMS::SHFeature::get_alignment_error_down</a></div><div class="ttdeci">double get_alignment_error_down()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:319</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_aaa8fbe776e8b0f79478a2b61f62b9531"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#aaa8fbe776e8b0f79478a2b61f62b9531">OpenMS::SHFeature::get_match_list_start</a></div><div class="ttdeci">std::map< int, SHFeature >::iterator get_match_list_start()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:198</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_afccaa2da5e458142ecf3cebd93e441a4"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#afccaa2da5e458142ecf3cebd93e441a4">OpenMS::SHFeature::get_scan_end</a></div><div class="ttdeci">int get_scan_end()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:294</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a8c5ab66df4471cfb30d7a34082d0c3fd"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a8c5ab66df4471cfb30d7a34082d0c3fd">OpenMS::SHFeature::get_peak_area</a></div><div class="ttdeci">double get_peak_area()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:304</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a224833adb062f28d016469ef64388df0"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a224833adb062f28d016469ef64388df0">OpenMS::SHFeature::SCORE_HOLDER</a></div><div class="ttdeci">double SCORE_HOLDER</div><div class="ttdef"><b>Definition:</b> SHFeature.h:80</div></div>
<div class="ttc" id="classOpenMS_1_1SHFeature_html_a0f1c8ecede55ae1ff92e1ab83e350c10"><div class="ttname"><a href="classOpenMS_1_1SHFeature.html#a0f1c8ecede55ae1ff92e1ab83e350c10">OpenMS::SHFeature::get_pep_prob</a></div><div class="ttdeci">double get_pep_prob()</div><div class="ttdef"><b>Definition:</b> SHFeature.h:267</div></div>
<div class="ttc" id="classOpenMS_1_1MS2Info_html"><div class="ttname"><a href="classOpenMS_1_1MS2Info.html">OpenMS::MS2Info</a></div><div class="ttdef"><b>Definition:</b> MS2Info.h:57</div></div>
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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 11:19:20 using doxygen 1.8.5</font></TD>
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