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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_0cb073f3ffc34c59e0f7dd814375c720.html">SIMULATION</a></li> </ul>
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<div class="title">RTSimulation.h</div> </div>
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<a href="RTSimulation_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>
28
<div class="line"><a name="l00002"></a><span class="lineno"> 2</span> <span class="comment">// OpenMS -- Open-Source Mass Spectrometry</span></div>
29
<div class="line"><a name="l00003"></a><span class="lineno"> 3</span> <span class="comment">// --------------------------------------------------------------------------</span></div>
30
<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>
31
<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>
32
<div class="line"><a name="l00006"></a><span class="lineno"> 6</span> <span class="comment">//</span></div>
33
<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>
34
<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>
35
<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>
36
<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>
37
<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>
38
<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>
39
<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>
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<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>
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<div class="line"><a name="l00015"></a><span class="lineno"> 15</span> <span class="comment">// without specific prior written permission.</span></div>
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<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>
43
<div class="line"><a name="l00017"></a><span class="lineno"> 17</span> <span class="comment">// --------------------------------------------------------------------------</span></div>
44
<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>
45
<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>
46
<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>
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<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>
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<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>
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<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>
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<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>
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<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>
52
<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>
53
<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>
54
<div class="line"><a name="l00028"></a><span class="lineno"> 28</span> <span class="comment">// ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.</span></div>
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<div class="line"><a name="l00029"></a><span class="lineno"> 29</span> <span class="comment">//</span></div>
56
<div class="line"><a name="l00030"></a><span class="lineno"> 30</span> <span class="comment">// --------------------------------------------------------------------------</span></div>
57
<div class="line"><a name="l00031"></a><span class="lineno"> 31</span> <span class="comment">// $Maintainer: Stephan Aiche$</span></div>
58
<div class="line"><a name="l00032"></a><span class="lineno"> 32</span> <span class="comment">// $Authors: Stephan Aiche, Chris Bielow$</span></div>
59
<div class="line"><a name="l00033"></a><span class="lineno"> 33</span> <span class="comment">// --------------------------------------------------------------------------</span></div>
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<div class="line"><a name="l00034"></a><span class="lineno"> 34</span> </div>
61
<div class="line"><a name="l00035"></a><span class="lineno"> 35</span> <span class="preprocessor">#ifndef OPENMS_SIMULATION_RTSIMULATION_H</span></div>
62
<div class="line"><a name="l00036"></a><span class="lineno"> 36</span> <span class="preprocessor"></span><span class="preprocessor">#define OPENMS_SIMULATION_RTSIMULATION_H</span></div>
63
<div class="line"><a name="l00037"></a><span class="lineno"> 37</span> <span class="preprocessor"></span></div>
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<div class="line"><a name="l00038"></a><span class="lineno"> 38</span> <span class="preprocessor">#include <<a class="code" href="Map_8h.html">OpenMS/DATASTRUCTURES/Map.h</a>></span></div>
65
<div class="line"><a name="l00039"></a><span class="lineno"> 39</span> <span class="preprocessor">#include <<a class="code" href="DefaultParamHandler_8h.html">OpenMS/DATASTRUCTURES/DefaultParamHandler.h</a>></span></div>
66
<div class="line"><a name="l00040"></a><span class="lineno"> 40</span> <span class="preprocessor">#include <<a class="code" href="SimTypes_8h.html">OpenMS/SIMULATION/SimTypes.h</a>></span></div>
67
<div class="line"><a name="l00041"></a><span class="lineno"> 41</span> </div>
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<div class="line"><a name="l00042"></a><span class="lineno"> 42</span> <span class="keyword">namespace </span>OpenMS</div>
69
<div class="line"><a name="l00043"></a><span class="lineno"> 43</span> {</div>
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<div class="line"><a name="l00055"></a><span class="lineno"><a class="line" href="classOpenMS_1_1RTSimulation.html"> 55</a></span>  <span class="keyword">class </span>OPENMS_DLLAPI <a class="code" href="classOpenMS_1_1RTSimulation.html">RTSimulation</a> :</div>
71
<div class="line"><a name="l00056"></a><span class="lineno"> 56</span>  <span class="keyword">public</span> <a class="code" href="classOpenMS_1_1DefaultParamHandler.html">DefaultParamHandler</a></div>
72
<div class="line"><a name="l00057"></a><span class="lineno"> 57</span>  {</div>
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<div class="line"><a name="l00058"></a><span class="lineno"> 58</span> </div>
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<div class="line"><a name="l00059"></a><span class="lineno"> 59</span> <span class="keyword">public</span>:</div>
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<div class="line"><a name="l00063"></a><span class="lineno"> 63</span> </div>
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<div class="line"><a name="l00065"></a><span class="lineno"> 65</span>  <a class="code" href="classOpenMS_1_1RTSimulation.html">RTSimulation</a>(<span class="keyword">const</span> <a class="code" href="structOpenMS_1_1SimRandomNumberGenerator.html">SimRandomNumberGenerator</a> & random_generator);</div>
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<div class="line"><a name="l00066"></a><span class="lineno"> 66</span> </div>
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<div class="line"><a name="l00068"></a><span class="lineno"> 68</span>  <a class="code" href="classOpenMS_1_1RTSimulation.html">RTSimulation</a>(<span class="keyword">const</span> <a class="code" href="classOpenMS_1_1RTSimulation.html">RTSimulation</a> & source);</div>
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<div class="line"><a name="l00069"></a><span class="lineno"> 69</span> </div>
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<div class="line"><a name="l00071"></a><span class="lineno"> 71</span>  <span class="keyword">virtual</span> ~<a class="code" href="classOpenMS_1_1RTSimulation.html">RTSimulation</a>();</div>
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<div class="line"><a name="l00073"></a><span class="lineno"> 73</span> </div>
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<div class="line"><a name="l00075"></a><span class="lineno"> 75</span>  <a class="code" href="classOpenMS_1_1RTSimulation.html">RTSimulation</a> & operator=(<span class="keyword">const</span> <a class="code" href="classOpenMS_1_1RTSimulation.html">RTSimulation</a> & source);</div>
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<div class="line"><a name="l00076"></a><span class="lineno"> 76</span> </div>
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<div class="line"><a name="l00082"></a><span class="lineno"> 82</span>  <span class="keywordtype">void</span> predictRT(<a class="code" href="classOpenMS_1_1FeatureMap.html">FeatureMapSim</a> & features);</div>
85
<div class="line"><a name="l00083"></a><span class="lineno"> 83</span> </div>
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<div class="line"><a name="l00087"></a><span class="lineno"> 87</span>  <span class="keywordtype">void</span> predictContaminantsRT(<a class="code" href="classOpenMS_1_1FeatureMap.html">FeatureMapSim</a> &);</div>
87
<div class="line"><a name="l00088"></a><span class="lineno"> 88</span> </div>
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<div class="line"><a name="l00092"></a><span class="lineno"> 92</span>  <span class="keywordtype">bool</span> isRTColumnOn() <span class="keyword">const</span>;</div>
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<div class="line"><a name="l00093"></a><span class="lineno"> 93</span> </div>
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<div class="line"><a name="l00095"></a><span class="lineno"> 95</span>  <span class="keywordtype">void</span> wrapSVM(std::vector<AASequence> & peptide_sequences, std::vector<DoubleReal> & predicted_retention_times);</div>
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<div class="line"><a name="l00096"></a><span class="lineno"> 96</span> </div>
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<div class="line"><a name="l00097"></a><span class="lineno"> 97</span>  <a class="code" href="classdouble.html">SimCoordinateType</a> getGradientTime() <span class="keyword">const</span>;</div>
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<div class="line"><a name="l00098"></a><span class="lineno"> 98</span> </div>
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<div class="line"><a name="l00100"></a><span class="lineno"> 100</span>  <span class="keywordtype">void</span> createExperiment(<a class="code" href="classOpenMS_1_1MSExperiment.html">MSSimExperiment</a> & experiment);</div>
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<div class="line"><a name="l00101"></a><span class="lineno"> 101</span> </div>
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<div class="line"><a name="l00102"></a><span class="lineno"> 102</span> <span class="keyword">private</span>:</div>
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<div class="line"><a name="l00104"></a><span class="lineno"> 104</span>  <a class="code" href="classOpenMS_1_1RTSimulation.html">RTSimulation</a>();</div>
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<div class="line"><a name="l00105"></a><span class="lineno"> 105</span> </div>
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<div class="line"><a name="l00107"></a><span class="lineno"> 107</span>  <span class="keywordtype">void</span> setDefaultParams_();</div>
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<div class="line"><a name="l00108"></a><span class="lineno"> 108</span> </div>
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<div class="line"><a name="l00110"></a><span class="lineno"> 110</span>  <span class="keywordtype">void</span> noRTColumn_(<a class="code" href="classOpenMS_1_1FeatureMap.html">FeatureMapSim</a> &);</div>
102
<div class="line"><a name="l00111"></a><span class="lineno"> 111</span> </div>
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<div class="line"><a name="l00113"></a><span class="lineno"> 113</span>  <span class="keywordtype">void</span> smoothRTDistortion_(<a class="code" href="classOpenMS_1_1MSExperiment.html">MSSimExperiment</a> & experiment);</div>
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<div class="line"><a name="l00114"></a><span class="lineno"> 114</span> </div>
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<div class="line"><a name="l00122"></a><span class="lineno"> 122</span>  <span class="keywordtype">void</span> calculateMT_(<a class="code" href="classOpenMS_1_1FeatureMap.html">FeatureMapSim</a> & features, std::vector<DoubleReal> & predicted_retention_times);</div>
106
<div class="line"><a name="l00123"></a><span class="lineno"> 123</span> </div>
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<div class="line"><a name="l00124"></a><span class="lineno"> 124</span>  <span class="keywordtype">void</span> getChargeContribution_(<a class="code" href="classOpenMS_1_1Map.html">Map<String, double></a> & q_cterm,</div>
108
<div class="line"><a name="l00125"></a><span class="lineno"> 125</span>  <a class="code" href="classOpenMS_1_1Map.html">Map<String, double></a> & q_nterm,</div>
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<div class="line"><a name="l00126"></a><span class="lineno"> 126</span>  <a class="code" href="classOpenMS_1_1Map.html">Map<String, double></a> & q_aa_basic,</div>
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<div class="line"><a name="l00127"></a><span class="lineno"> 127</span>  <a class="code" href="classOpenMS_1_1Map.html">Map<String, double></a> & q_aa_acidic);</div>
111
<div class="line"><a name="l00128"></a><span class="lineno"> 128</span> </div>
112
<div class="line"><a name="l00129"></a><span class="lineno"> 129</span>  <span class="comment">// MEMBERS:</span></div>
113
<div class="line"><a name="l00130"></a><span class="lineno"> 130</span> </div>
114
<div class="line"><a name="l00131"></a><span class="lineno"> 131</span>  <span class="comment">// Name of the svm model file</span></div>
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<div class="line"><a name="l00132"></a><span class="lineno"><a class="line" href="classOpenMS_1_1RTSimulation.html#a2ca80ee9bf721feebb4f9db372633a08"> 132</a></span>  <a class="code" href="classOpenMS_1_1String.html">OpenMS::String</a> <a class="code" href="classOpenMS_1_1RTSimulation.html#a2ca80ee9bf721feebb4f9db372633a08">rt_model_file_</a>;</div>
116
<div class="line"><a name="l00133"></a><span class="lineno"> 133</span> </div>
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<div class="line"><a name="l00135"></a><span class="lineno"><a class="line" href="classOpenMS_1_1RTSimulation.html#aad41a72aba947f4f94385e180f304ea0"> 135</a></span>  <a class="code" href="classdouble.html">SimCoordinateType</a> <a class="code" href="classOpenMS_1_1RTSimulation.html#aad41a72aba947f4f94385e180f304ea0">total_gradient_time_</a>;</div>
118
<div class="line"><a name="l00136"></a><span class="lineno"> 136</span> </div>
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<div class="line"><a name="l00138"></a><span class="lineno"> 138</span> </div>
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<div class="line"><a name="l00140"></a><span class="lineno"><a class="line" href="classOpenMS_1_1RTSimulation.html#a41136c7b340c11631ca29175229a4b18"> 140</a></span>  <a class="code" href="classdouble.html">SimCoordinateType</a> <a class="code" href="classOpenMS_1_1RTSimulation.html#a41136c7b340c11631ca29175229a4b18">gradient_min_</a>;</div>
121
<div class="line"><a name="l00142"></a><span class="lineno"><a class="line" href="classOpenMS_1_1RTSimulation.html#a630005e5d32afe42a191a84ed1307171"> 142</a></span>  <a class="code" href="classdouble.html">SimCoordinateType</a> <a class="code" href="classOpenMS_1_1RTSimulation.html#a630005e5d32afe42a191a84ed1307171">gradient_max_</a>;</div>
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<div class="line"><a name="l00143"></a><span class="lineno"> 143</span> </div>
123
<div class="line"><a name="l00145"></a><span class="lineno"><a class="line" href="classOpenMS_1_1RTSimulation.html#a5070ae6e05eee20e2092127475da3951"> 145</a></span>  <a class="code" href="classdouble.html">SimCoordinateType</a> <a class="code" href="classOpenMS_1_1RTSimulation.html#a5070ae6e05eee20e2092127475da3951">rt_sampling_rate_</a>;</div>
124
<div class="line"><a name="l00146"></a><span class="lineno"> 146</span> </div>
125
<div class="line"><a name="l00148"></a><span class="lineno"><a class="line" href="classOpenMS_1_1RTSimulation.html#aa23e9628bc5d51649d0f0f6692a51847"> 148</a></span>  <a class="code" href="classdouble.html">DoubleReal</a> <a class="code" href="classOpenMS_1_1RTSimulation.html#aa23e9628bc5d51649d0f0f6692a51847">egh_tau_location_</a>;</div>
126
<div class="line"><a name="l00150"></a><span class="lineno"><a class="line" href="classOpenMS_1_1RTSimulation.html#aff67422b2f91eb7c4b0c07310a21c62b"> 150</a></span>  <a class="code" href="classdouble.html">DoubleReal</a> <a class="code" href="classOpenMS_1_1RTSimulation.html#aff67422b2f91eb7c4b0c07310a21c62b">egh_tau_scale_</a>;</div>
127
<div class="line"><a name="l00151"></a><span class="lineno"> 151</span> </div>
128
<div class="line"><a name="l00153"></a><span class="lineno"><a class="line" href="classOpenMS_1_1RTSimulation.html#a87bc858f8d96b32af415e416942d98b1"> 153</a></span>  <a class="code" href="classdouble.html">DoubleReal</a> <a class="code" href="classOpenMS_1_1RTSimulation.html#a87bc858f8d96b32af415e416942d98b1">egh_variance_location_</a>;</div>
129
<div class="line"><a name="l00155"></a><span class="lineno"><a class="line" href="classOpenMS_1_1RTSimulation.html#ab05d1f4edb0b7f9c544dd83b61b77b2e"> 155</a></span>  <a class="code" href="classdouble.html">DoubleReal</a> <a class="code" href="classOpenMS_1_1RTSimulation.html#ab05d1f4edb0b7f9c544dd83b61b77b2e">egh_variance_scale_</a>;</div>
130
<div class="line"><a name="l00156"></a><span class="lineno"> 156</span> </div>
131
<div class="line"><a name="l00157"></a><span class="lineno"> 157</span> <span class="keyword">protected</span>:</div>
132
<div class="line"><a name="l00159"></a><span class="lineno"><a class="line" href="classOpenMS_1_1RTSimulation.html#a1755a34bd4d88feb6a87a209273177eb"> 159</a></span>  <a class="code" href="structOpenMS_1_1SimRandomNumberGenerator.html">SimRandomNumberGenerator</a> <span class="keyword">const</span> * <a class="code" href="classOpenMS_1_1RTSimulation.html#a1755a34bd4d88feb6a87a209273177eb">rnd_gen_</a>;</div>
133
<div class="line"><a name="l00160"></a><span class="lineno"> 160</span> </div>
134
<div class="line"><a name="l00162"></a><span class="lineno"> 162</span>  <span class="keywordtype">void</span> updateMembers_();</div>
135
<div class="line"><a name="l00163"></a><span class="lineno"> 163</span> </div>
136
<div class="line"><a name="l00164"></a><span class="lineno"> 164</span>  };</div>
137
<div class="line"><a name="l00165"></a><span class="lineno"> 165</span> </div>
138
<div class="line"><a name="l00166"></a><span class="lineno"> 166</span> }</div>
139
<div class="line"><a name="l00167"></a><span class="lineno"> 167</span> </div>
140
<div class="line"><a name="l00168"></a><span class="lineno"> 168</span> <span class="preprocessor">#endif</span></div>
141
<div class="ttc" id="classOpenMS_1_1RTSimulation_html_a1755a34bd4d88feb6a87a209273177eb"><div class="ttname"><a href="classOpenMS_1_1RTSimulation.html#a1755a34bd4d88feb6a87a209273177eb">OpenMS::RTSimulation::rnd_gen_</a></div><div class="ttdeci">SimRandomNumberGenerator const * rnd_gen_</div><div class="ttdoc">Random number generator. </div><div class="ttdef"><b>Definition:</b> RTSimulation.h:159</div></div>
142
<div class="ttc" id="classOpenMS_1_1String_html"><div class="ttname"><a href="classOpenMS_1_1String.html">OpenMS::String</a></div><div class="ttdoc">A more convenient string class. </div><div class="ttdef"><b>Definition:</b> String.h:56</div></div>
143
<div class="ttc" id="classOpenMS_1_1RTSimulation_html_a2ca80ee9bf721feebb4f9db372633a08"><div class="ttname"><a href="classOpenMS_1_1RTSimulation.html#a2ca80ee9bf721feebb4f9db372633a08">OpenMS::RTSimulation::rt_model_file_</a></div><div class="ttdeci">OpenMS::String rt_model_file_</div><div class="ttdef"><b>Definition:</b> RTSimulation.h:132</div></div>
144
<div class="ttc" id="classOpenMS_1_1RTSimulation_html_a630005e5d32afe42a191a84ed1307171"><div class="ttname"><a href="classOpenMS_1_1RTSimulation.html#a630005e5d32afe42a191a84ed1307171">OpenMS::RTSimulation::gradient_max_</a></div><div class="ttdeci">SimCoordinateType gradient_max_</div><div class="ttdoc">Maximal observed gradient time. </div><div class="ttdef"><b>Definition:</b> RTSimulation.h:142</div></div>
145
<div class="ttc" id="SimTypes_8h_html"><div class="ttname"><a href="SimTypes_8h.html">SimTypes.h</a></div></div>
146
<div class="ttc" id="classOpenMS_1_1FeatureMap_html"><div class="ttname"><a href="classOpenMS_1_1FeatureMap.html">OpenMS::FeatureMap</a></div><div class="ttdoc">A container for features. </div><div class="ttdef"><b>Definition:</b> FeatureMap.h:111</div></div>
147
<div class="ttc" id="Map_8h_html"><div class="ttname"><a href="Map_8h.html">Map.h</a></div></div>
148
<div class="ttc" id="classdouble_html"><div class="ttname"><a href="classdouble.html">double</a></div></div>
149
<div class="ttc" id="classOpenMS_1_1RTSimulation_html"><div class="ttname"><a href="classOpenMS_1_1RTSimulation.html">OpenMS::RTSimulation</a></div><div class="ttdoc">Simulates/Predicts retention times for peptides or peptide separation. </div><div class="ttdef"><b>Definition:</b> RTSimulation.h:55</div></div>
150
<div class="ttc" id="classOpenMS_1_1RTSimulation_html_a41136c7b340c11631ca29175229a4b18"><div class="ttname"><a href="classOpenMS_1_1RTSimulation.html#a41136c7b340c11631ca29175229a4b18">OpenMS::RTSimulation::gradient_min_</a></div><div class="ttdeci">SimCoordinateType gradient_min_</div><div class="ttdoc">gradient ranges </div><div class="ttdef"><b>Definition:</b> RTSimulation.h:140</div></div>
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<div class="ttc" id="classOpenMS_1_1RTSimulation_html_ab05d1f4edb0b7f9c544dd83b61b77b2e"><div class="ttname"><a href="classOpenMS_1_1RTSimulation.html#ab05d1f4edb0b7f9c544dd83b61b77b2e">OpenMS::RTSimulation::egh_variance_scale_</a></div><div class="ttdeci">DoubleReal egh_variance_scale_</div><div class="ttdoc">EGH sigma scale parameter of the lorentzian variation. </div><div class="ttdef"><b>Definition:</b> RTSimulation.h:155</div></div>
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<div class="ttc" id="DefaultParamHandler_8h_html"><div class="ttname"><a href="DefaultParamHandler_8h.html">DefaultParamHandler.h</a></div></div>
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<div class="ttc" id="classOpenMS_1_1RTSimulation_html_a5070ae6e05eee20e2092127475da3951"><div class="ttname"><a href="classOpenMS_1_1RTSimulation.html#a5070ae6e05eee20e2092127475da3951">OpenMS::RTSimulation::rt_sampling_rate_</a></div><div class="ttdeci">SimCoordinateType rt_sampling_rate_</div><div class="ttdoc">bin size in rt dimension </div><div class="ttdef"><b>Definition:</b> RTSimulation.h:145</div></div>
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<div class="ttc" id="structOpenMS_1_1SimRandomNumberGenerator_html"><div class="ttname"><a href="structOpenMS_1_1SimRandomNumberGenerator.html">OpenMS::SimRandomNumberGenerator</a></div><div class="ttdoc">Wrapper class for random number generators used by the simulation classes. </div><div class="ttdef"><b>Definition:</b> SimTypes.h:99</div></div>
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<div class="ttc" id="classOpenMS_1_1MSExperiment_html"><div class="ttname"><a href="classOpenMS_1_1MSExperiment.html">OpenMS::MSExperiment< SimPointType ></a></div></div>
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<div class="ttc" id="classOpenMS_1_1RTSimulation_html_a87bc858f8d96b32af415e416942d98b1"><div class="ttname"><a href="classOpenMS_1_1RTSimulation.html#a87bc858f8d96b32af415e416942d98b1">OpenMS::RTSimulation::egh_variance_location_</a></div><div class="ttdeci">DoubleReal egh_variance_location_</div><div class="ttdoc">EGH sigma value. </div><div class="ttdef"><b>Definition:</b> RTSimulation.h:153</div></div>
157
<div class="ttc" id="classOpenMS_1_1RTSimulation_html_aa23e9628bc5d51649d0f0f6692a51847"><div class="ttname"><a href="classOpenMS_1_1RTSimulation.html#aa23e9628bc5d51649d0f0f6692a51847">OpenMS::RTSimulation::egh_tau_location_</a></div><div class="ttdeci">DoubleReal egh_tau_location_</div><div class="ttdoc">EGH tau value. </div><div class="ttdef"><b>Definition:</b> RTSimulation.h:148</div></div>
158
<div class="ttc" id="classOpenMS_1_1DefaultParamHandler_html"><div class="ttname"><a href="classOpenMS_1_1DefaultParamHandler.html">OpenMS::DefaultParamHandler</a></div><div class="ttdoc">A base class for all classes handling default parameters. </div><div class="ttdef"><b>Definition:</b> DefaultParamHandler.h:90</div></div>
159
<div class="ttc" id="classOpenMS_1_1Map_html"><div class="ttname"><a href="classOpenMS_1_1Map.html">OpenMS::Map</a></div><div class="ttdoc">Map class based on the STL map (containing serveral convenience functions) </div><div class="ttdef"><b>Definition:</b> Map.h:50</div></div>
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<div class="ttc" id="classOpenMS_1_1RTSimulation_html_aff67422b2f91eb7c4b0c07310a21c62b"><div class="ttname"><a href="classOpenMS_1_1RTSimulation.html#aff67422b2f91eb7c4b0c07310a21c62b">OpenMS::RTSimulation::egh_tau_scale_</a></div><div class="ttdeci">DoubleReal egh_tau_scale_</div><div class="ttdoc">EGH tau scale parameter of the lorentzian variation. </div><div class="ttdef"><b>Definition:</b> RTSimulation.h:150</div></div>
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<div class="ttc" id="classOpenMS_1_1RTSimulation_html_aad41a72aba947f4f94385e180f304ea0"><div class="ttname"><a href="classOpenMS_1_1RTSimulation.html#aad41a72aba947f4f94385e180f304ea0">OpenMS::RTSimulation::total_gradient_time_</a></div><div class="ttdeci">SimCoordinateType total_gradient_time_</div><div class="ttdoc">Total gradient time. </div><div class="ttdef"><b>Definition:</b> RTSimulation.h:135</div></div>
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<TD><font color="#c0c0c0">OpenMS / TOPP release 1.11.1</font></TD>
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<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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