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<HTML>
<HEAD>
<TITLE>FeatureFinderAlgorithmMRM< PeakType, FeatureType > Class Template Reference</TITLE>
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<li class="navelem"><a class="el" href="namespaceOpenMS.html">OpenMS</a></li><li class="navelem"><a class="el" href="classOpenMS_1_1FeatureFinderAlgorithmMRM.html">FeatureFinderAlgorithmMRM</a></li> </ul>
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<a href="#pub-types">Public Types</a> |
<a href="#pub-methods">Public Member Functions</a> |
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<a href="#pro-methods">Protected Member Functions</a> |
<a href="classOpenMS_1_1FeatureFinderAlgorithmMRM-members.html">List of all members</a> </div>
<div class="headertitle">
<div class="title">FeatureFinderAlgorithmMRM< PeakType, FeatureType > Class Template Reference<div class="ingroups"><a class="el" href="group__FeatureFinder.html">FeatureFinder</a></div></div> </div>
</div><!--header-->
<div class="contents">
<p><a class="el" href="classOpenMS_1_1FeatureFinderAlgorithm.html" title="Abstract base class for FeatureFinder algorithms. ">FeatureFinderAlgorithm</a> for MRM experiments.
<a href="classOpenMS_1_1FeatureFinderAlgorithmMRM.html#details">More...</a></p>
<p><code>#include <<a class="el" href="FeatureFinderAlgorithmMRM_8h_source.html">OpenMS/TRANSFORMATIONS/FEATUREFINDER/FeatureFinderAlgorithmMRM.h</a>></code></p>
<div class="dynheader">
Inheritance diagram for FeatureFinderAlgorithmMRM< PeakType, FeatureType >:</div>
<div class="dyncontent">
<div class="center">
<img src="classOpenMS_1_1FeatureFinderAlgorithmMRM.png" usemap="#FeatureFinderAlgorithmMRM< PeakType, FeatureType >_map" alt=""/>
<map id="FeatureFinderAlgorithmMRM< PeakType, FeatureType >_map" name="FeatureFinderAlgorithmMRM< PeakType, FeatureType >_map">
<area href="classOpenMS_1_1FeatureFinderAlgorithm.html" title="Abstract base class for FeatureFinder algorithms. " alt="FeatureFinderAlgorithm< PeakType, FeatureType >" shape="rect" coords="0,56,337,80"/>
<area href="structOpenMS_1_1FeatureFinderDefs.html" title="The purpose of this struct is to provide definitions of classes and typedefs which are used throughou..." alt="FeatureFinderDefs" shape="rect" coords="347,56,684,80"/>
<area href="classOpenMS_1_1DefaultParamHandler.html" title="A base class for all classes handling default parameters. " alt="DefaultParamHandler" shape="rect" coords="0,0,337,24"/>
</map>
</div></div>
<table class="memberdecls">
<tr class="heading"><td colspan="2"><h2 class="groupheader"><a name="pub-types"></a>
Public Types</h2></td></tr>
<tr class="memitem:a80155586fa275b28773c9b203f52caba"><td class="memItemLeft" align="right" valign="top">enum  </td><td class="memItemRight" valign="bottom">{ <a class="el" href="classOpenMS_1_1FeatureFinderAlgorithmMRM.html#a80155586fa275b28773c9b203f52cabaaf388fcb6d444ef59841ef549ca6ee0da">RT</a> = Peak2D::RT,
<a class="el" href="classOpenMS_1_1FeatureFinderAlgorithmMRM.html#a80155586fa275b28773c9b203f52cabaa35008b046ec2687e53152082281d0867">MZ</a> = Peak2D::MZ
}</td></tr>
<tr class="separator:a80155586fa275b28773c9b203f52caba"><td class="memSeparator" colspan="2"> </td></tr>
<tr><td colspan="2"><div class="groupHeader">Type definitions</div></td></tr>
<tr class="memitem:a2f89be2feec82f5414aedc09e488420b"><td class="memItemLeft" align="right" valign="top">typedef <a class="el" href="classOpenMS_1_1FeatureFinderAlgorithm.html">FeatureFinderAlgorithm</a><br class="typebreak"/>
< <a class="el" href="namespaceOpenMS.html#a013338b7bdbb5c3b4c78666656070e23">PeakType</a>, FeatureType ><br class="typebreak"/>
::<a class="el" href="classOpenMS_1_1FeatureFinderAlgorithm.html#adf6f376e844058d129ce8ba868276643">MapType</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1FeatureFinderAlgorithmMRM.html#a2f89be2feec82f5414aedc09e488420b">MapType</a></td></tr>
<tr class="separator:a2f89be2feec82f5414aedc09e488420b"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:ae4e0f0c176662a323a6a64d29ff986dd"><td class="memItemLeft" align="right" valign="top">typedef <a class="el" href="classOpenMS_1_1MSExperiment.html#a066042ae14211da37d4fa66d466bfa3e">MapType::SpectrumType</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1FeatureFinderAlgorithmMRM.html#ae4e0f0c176662a323a6a64d29ff986dd">SpectrumType</a></td></tr>
<tr class="separator:ae4e0f0c176662a323a6a64d29ff986dd"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a4097a067534171488208ac7b101b5c0c"><td class="memItemLeft" align="right" valign="top">typedef <br class="typebreak"/>
<a class="el" href="classOpenMS_1_1MSSpectrum.html#ae2fc906f686ab141e88c57655afd1774">SpectrumType::FloatDataArrays</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1FeatureFinderAlgorithmMRM.html#a4097a067534171488208ac7b101b5c0c">FloatDataArrays</a></td></tr>
<tr class="separator:a4097a067534171488208ac7b101b5c0c"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="inherit_header pub_types_classOpenMS_1_1FeatureFinderAlgorithm"><td colspan="2" onclick="javascript:toggleInherit('pub_types_classOpenMS_1_1FeatureFinderAlgorithm')"><img src="closed.png" alt="-"/> Public Types inherited from <a class="el" href="classOpenMS_1_1FeatureFinderAlgorithm.html">FeatureFinderAlgorithm< PeakType, FeatureType ></a></td></tr>
<tr class="memitem:adf6f376e844058d129ce8ba868276643 inherit pub_types_classOpenMS_1_1FeatureFinderAlgorithm"><td class="memItemLeft" align="right" valign="top">typedef <a class="el" href="classOpenMS_1_1MSExperiment.html">MSExperiment</a>< <a class="el" href="namespaceOpenMS.html#a013338b7bdbb5c3b4c78666656070e23">PeakType</a> > </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1FeatureFinderAlgorithm.html#adf6f376e844058d129ce8ba868276643">MapType</a></td></tr>
<tr class="memdesc:adf6f376e844058d129ce8ba868276643 inherit pub_types_classOpenMS_1_1FeatureFinderAlgorithm"><td class="mdescLeft"> </td><td class="mdescRight">Input map type. <a href="#adf6f376e844058d129ce8ba868276643">More...</a><br/></td></tr>
<tr class="separator:adf6f376e844058d129ce8ba868276643 inherit pub_types_classOpenMS_1_1FeatureFinderAlgorithm"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:ae6ccfa631b2715c7d67fb491ebb6c422 inherit pub_types_classOpenMS_1_1FeatureFinderAlgorithm"><td class="memItemLeft" align="right" valign="top">typedef <a class="el" href="classOpenMS_1_1MSExperiment.html#a181486a43da338e31f089df7661f50bb">MapType::CoordinateType</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1FeatureFinderAlgorithm.html#ae6ccfa631b2715c7d67fb491ebb6c422">CoordinateType</a></td></tr>
<tr class="memdesc:ae6ccfa631b2715c7d67fb491ebb6c422 inherit pub_types_classOpenMS_1_1FeatureFinderAlgorithm"><td class="mdescLeft"> </td><td class="mdescRight">Coordinate/Position type of peaks. <a href="#ae6ccfa631b2715c7d67fb491ebb6c422">More...</a><br/></td></tr>
<tr class="separator:ae6ccfa631b2715c7d67fb491ebb6c422 inherit pub_types_classOpenMS_1_1FeatureFinderAlgorithm"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:ad697cf4c925820f74c876c10d0cb5570 inherit pub_types_classOpenMS_1_1FeatureFinderAlgorithm"><td class="memItemLeft" align="right" valign="top">typedef <a class="el" href="classOpenMS_1_1MSExperiment.html#a221361082f641c3fccc58e9bc66aeee1">MapType::IntensityType</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1FeatureFinderAlgorithm.html#ad697cf4c925820f74c876c10d0cb5570">IntensityType</a></td></tr>
<tr class="memdesc:ad697cf4c925820f74c876c10d0cb5570 inherit pub_types_classOpenMS_1_1FeatureFinderAlgorithm"><td class="mdescLeft"> </td><td class="mdescRight">Intensity type of peaks. <a href="#ad697cf4c925820f74c876c10d0cb5570">More...</a><br/></td></tr>
<tr class="separator:ad697cf4c925820f74c876c10d0cb5570 inherit pub_types_classOpenMS_1_1FeatureFinderAlgorithm"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a21ea3968c35235b6b3cd78a2190280d9 inherit pub_types_classOpenMS_1_1FeatureFinderAlgorithm"><td class="memItemLeft" align="right" valign="top">typedef <a class="el" href="classOpenMS_1_1FeatureMap.html">FeatureMap</a>< FeatureType > </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1FeatureFinderAlgorithm.html#a21ea3968c35235b6b3cd78a2190280d9">FeatureMapType</a></td></tr>
<tr class="memdesc:a21ea3968c35235b6b3cd78a2190280d9 inherit pub_types_classOpenMS_1_1FeatureFinderAlgorithm"><td class="mdescLeft"> </td><td class="mdescRight">Output feature type. <a href="#a21ea3968c35235b6b3cd78a2190280d9">More...</a><br/></td></tr>
<tr class="separator:a21ea3968c35235b6b3cd78a2190280d9 inherit pub_types_classOpenMS_1_1FeatureFinderAlgorithm"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="inherit_header pub_types_structOpenMS_1_1FeatureFinderDefs"><td colspan="2" onclick="javascript:toggleInherit('pub_types_structOpenMS_1_1FeatureFinderDefs')"><img src="closed.png" alt="-"/> Public Types inherited from <a class="el" href="structOpenMS_1_1FeatureFinderDefs.html">FeatureFinderDefs</a></td></tr>
<tr class="memitem:a3f3de3e0d751949b8d0b60ffb302944a inherit pub_types_structOpenMS_1_1FeatureFinderDefs"><td class="memItemLeft" align="right" valign="top">enum  </td><td class="memItemRight" valign="bottom"><a class="el" href="structOpenMS_1_1FeatureFinderDefs.html#a3f3de3e0d751949b8d0b60ffb302944a">Flag</a> { <a class="el" href="structOpenMS_1_1FeatureFinderDefs.html#a3f3de3e0d751949b8d0b60ffb302944aaa09b651ef326a9d8efcee5cc5b720ab4">UNUSED</a>,
<a class="el" href="structOpenMS_1_1FeatureFinderDefs.html#a3f3de3e0d751949b8d0b60ffb302944aa1e780c62cb3fd2edcac39f739bbe6f6c">USED</a>
}</td></tr>
<tr class="memdesc:a3f3de3e0d751949b8d0b60ffb302944a"><td class="mdescLeft"> </td><td class="mdescRight">Flags that indicate if a peak is already used in a feature. <a href="structOpenMS_1_1FeatureFinderDefs.html#a3f3de3e0d751949b8d0b60ffb302944a">More...</a><br/></td></tr>
<tr class="separator:a3f3de3e0d751949b8d0b60ffb302944a inherit pub_types_structOpenMS_1_1FeatureFinderDefs"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:aaee0bfd850887fdc58115cead9e9b8b9 inherit pub_types_structOpenMS_1_1FeatureFinderDefs"><td class="memItemLeft" align="right" valign="top">typedef <a class="el" href="structOpenMS_1_1IsotopeCluster.html#a0cab124671a3ada269f0553e1c8934da">IsotopeCluster::IndexPair</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="structOpenMS_1_1FeatureFinderDefs.html#aaee0bfd850887fdc58115cead9e9b8b9">IndexPair</a></td></tr>
<tr class="memdesc:aaee0bfd850887fdc58115cead9e9b8b9 inherit pub_types_structOpenMS_1_1FeatureFinderDefs"><td class="mdescLeft"> </td><td class="mdescRight">Index to peak consisting of two UInts (scan index / peak index) <a href="#aaee0bfd850887fdc58115cead9e9b8b9">More...</a><br/></td></tr>
<tr class="separator:aaee0bfd850887fdc58115cead9e9b8b9 inherit pub_types_structOpenMS_1_1FeatureFinderDefs"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:af01a99958d0b18999737158daf8820ac inherit pub_types_structOpenMS_1_1FeatureFinderDefs"><td class="memItemLeft" align="right" valign="top">typedef <br class="typebreak"/>
<a class="el" href="structOpenMS_1_1IsotopeCluster_1_1ChargedIndexSet.html">IsotopeCluster::ChargedIndexSet</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="structOpenMS_1_1FeatureFinderDefs.html#af01a99958d0b18999737158daf8820ac">ChargedIndexSet</a></td></tr>
<tr class="memdesc:af01a99958d0b18999737158daf8820ac inherit pub_types_structOpenMS_1_1FeatureFinderDefs"><td class="mdescLeft"> </td><td class="mdescRight">Index to peak consisting of two UInts (scan index / peak index) with charge information. <a href="#af01a99958d0b18999737158daf8820ac">More...</a><br/></td></tr>
<tr class="separator:af01a99958d0b18999737158daf8820ac inherit pub_types_structOpenMS_1_1FeatureFinderDefs"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:af7439235b89a75354a2e87350e36834f inherit pub_types_structOpenMS_1_1FeatureFinderDefs"><td class="memItemLeft" align="right" valign="top">typedef <a class="el" href="structOpenMS_1_1IsotopeCluster.html#aed4049efd4228c847ab300ac4c466eca">IsotopeCluster::IndexSet</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="structOpenMS_1_1FeatureFinderDefs.html#af7439235b89a75354a2e87350e36834f">IndexSet</a></td></tr>
<tr class="memdesc:af7439235b89a75354a2e87350e36834f inherit pub_types_structOpenMS_1_1FeatureFinderDefs"><td class="mdescLeft"> </td><td class="mdescRight">A set of peak indices. <a href="#af7439235b89a75354a2e87350e36834f">More...</a><br/></td></tr>
<tr class="separator:af7439235b89a75354a2e87350e36834f inherit pub_types_structOpenMS_1_1FeatureFinderDefs"><td class="memSeparator" colspan="2"> </td></tr>
</table><table class="memberdecls">
<tr class="heading"><td colspan="2"><h2 class="groupheader"><a name="pub-methods"></a>
Public Member Functions</h2></td></tr>
<tr class="memitem:a655f6cc951b2ed0b71161df3275dfe3f"><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1FeatureFinderAlgorithmMRM.html#a655f6cc951b2ed0b71161df3275dfe3f">FeatureFinderAlgorithmMRM</a> ()</td></tr>
<tr class="memdesc:a655f6cc951b2ed0b71161df3275dfe3f"><td class="mdescLeft"> </td><td class="mdescRight">default constructor <a href="#a655f6cc951b2ed0b71161df3275dfe3f">More...</a><br/></td></tr>
<tr class="separator:a655f6cc951b2ed0b71161df3275dfe3f"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a72fcb26a14f6beb1c3fbace9ab3e7dbb"><td class="memItemLeft" align="right" valign="top">virtual void </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1FeatureFinderAlgorithmMRM.html#a72fcb26a14f6beb1c3fbace9ab3e7dbb">run</a> ()</td></tr>
<tr class="memdesc:a72fcb26a14f6beb1c3fbace9ab3e7dbb"><td class="mdescLeft"> </td><td class="mdescRight">Main method for actual <a class="el" href="classOpenMS_1_1FeatureFinder.html" title="The main feature finder class. ">FeatureFinder</a>. <a href="#a72fcb26a14f6beb1c3fbace9ab3e7dbb">More...</a><br/></td></tr>
<tr class="separator:a72fcb26a14f6beb1c3fbace9ab3e7dbb"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="inherit_header pub_methods_classOpenMS_1_1FeatureFinderAlgorithm"><td colspan="2" onclick="javascript:toggleInherit('pub_methods_classOpenMS_1_1FeatureFinderAlgorithm')"><img src="closed.png" alt="-"/> Public Member Functions inherited from <a class="el" href="classOpenMS_1_1FeatureFinderAlgorithm.html">FeatureFinderAlgorithm< PeakType, FeatureType ></a></td></tr>
<tr class="memitem:ab3f8cbcd66e98d658af1c794192988a8 inherit pub_methods_classOpenMS_1_1FeatureFinderAlgorithm"><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1FeatureFinderAlgorithm.html#ab3f8cbcd66e98d658af1c794192988a8">FeatureFinderAlgorithm</a> ()</td></tr>
<tr class="memdesc:ab3f8cbcd66e98d658af1c794192988a8 inherit pub_methods_classOpenMS_1_1FeatureFinderAlgorithm"><td class="mdescLeft"> </td><td class="mdescRight">default constructor <a href="#ab3f8cbcd66e98d658af1c794192988a8">More...</a><br/></td></tr>
<tr class="separator:ab3f8cbcd66e98d658af1c794192988a8 inherit pub_methods_classOpenMS_1_1FeatureFinderAlgorithm"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a636289874783c1efc7df5cb0359007d5 inherit pub_methods_classOpenMS_1_1FeatureFinderAlgorithm"><td class="memItemLeft" align="right" valign="top">virtual </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1FeatureFinderAlgorithm.html#a636289874783c1efc7df5cb0359007d5">~FeatureFinderAlgorithm</a> ()</td></tr>
<tr class="memdesc:a636289874783c1efc7df5cb0359007d5 inherit pub_methods_classOpenMS_1_1FeatureFinderAlgorithm"><td class="mdescLeft"> </td><td class="mdescRight">destructor <a href="#a636289874783c1efc7df5cb0359007d5">More...</a><br/></td></tr>
<tr class="separator:a636289874783c1efc7df5cb0359007d5 inherit pub_methods_classOpenMS_1_1FeatureFinderAlgorithm"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:abe2fce5095efeecbcd815817430058e0 inherit pub_methods_classOpenMS_1_1FeatureFinderAlgorithm"><td class="memItemLeft" align="right" valign="top">virtual <a class="el" href="classOpenMS_1_1Param.html">Param</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1FeatureFinderAlgorithm.html#abe2fce5095efeecbcd815817430058e0">getDefaultParameters</a> () const </td></tr>
<tr class="memdesc:abe2fce5095efeecbcd815817430058e0 inherit pub_methods_classOpenMS_1_1FeatureFinderAlgorithm"><td class="mdescLeft"> </td><td class="mdescRight">Returns the default parameters. Reimplment. <a href="#abe2fce5095efeecbcd815817430058e0">More...</a><br/></td></tr>
<tr class="separator:abe2fce5095efeecbcd815817430058e0 inherit pub_methods_classOpenMS_1_1FeatureFinderAlgorithm"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a7e594645b8460e600602bb64a8403537 inherit pub_methods_classOpenMS_1_1FeatureFinderAlgorithm"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1FeatureFinderAlgorithm.html#a7e594645b8460e600602bb64a8403537">setData</a> (const <a class="el" href="classOpenMS_1_1FeatureFinderAlgorithm.html#adf6f376e844058d129ce8ba868276643">MapType</a> &map, <a class="el" href="classOpenMS_1_1FeatureFinderAlgorithm.html#a21ea3968c35235b6b3cd78a2190280d9">FeatureMapType</a> &features, <a class="el" href="classOpenMS_1_1FeatureFinder.html">FeatureFinder</a> &ff)</td></tr>
<tr class="memdesc:a7e594645b8460e600602bb64a8403537 inherit pub_methods_classOpenMS_1_1FeatureFinderAlgorithm"><td class="mdescLeft"> </td><td class="mdescRight">Sets a reference to the calling <a class="el" href="classOpenMS_1_1FeatureFinder.html" title="The main feature finder class. ">FeatureFinder</a>. <a href="#a7e594645b8460e600602bb64a8403537">More...</a><br/></td></tr>
<tr class="separator:a7e594645b8460e600602bb64a8403537 inherit pub_methods_classOpenMS_1_1FeatureFinderAlgorithm"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a683154793bbb12ab5d16db81209606b0 inherit pub_methods_classOpenMS_1_1FeatureFinderAlgorithm"><td class="memItemLeft" align="right" valign="top">virtual void </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1FeatureFinderAlgorithm.html#a683154793bbb12ab5d16db81209606b0">setSeeds</a> (const <a class="el" href="classOpenMS_1_1FeatureFinderAlgorithm.html#a21ea3968c35235b6b3cd78a2190280d9">FeatureMapType</a> &seeds)</td></tr>
<tr class="memdesc:a683154793bbb12ab5d16db81209606b0 inherit pub_methods_classOpenMS_1_1FeatureFinderAlgorithm"><td class="mdescLeft"> </td><td class="mdescRight">Sets a reference to the calling <a class="el" href="classOpenMS_1_1FeatureFinder.html" title="The main feature finder class. ">FeatureFinder</a>. <a href="#a683154793bbb12ab5d16db81209606b0">More...</a><br/></td></tr>
<tr class="separator:a683154793bbb12ab5d16db81209606b0 inherit pub_methods_classOpenMS_1_1FeatureFinderAlgorithm"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="inherit_header pub_methods_classOpenMS_1_1DefaultParamHandler"><td colspan="2" onclick="javascript:toggleInherit('pub_methods_classOpenMS_1_1DefaultParamHandler')"><img src="closed.png" alt="-"/> Public Member Functions inherited from <a class="el" href="classOpenMS_1_1DefaultParamHandler.html">DefaultParamHandler</a></td></tr>
<tr class="memitem:afb6802fda161cb0c1a4a05597f94aecc inherit pub_methods_classOpenMS_1_1DefaultParamHandler"><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html#afb6802fda161cb0c1a4a05597f94aecc">DefaultParamHandler</a> (const <a class="el" href="classOpenMS_1_1String.html">String</a> &name)</td></tr>
<tr class="memdesc:afb6802fda161cb0c1a4a05597f94aecc inherit pub_methods_classOpenMS_1_1DefaultParamHandler"><td class="mdescLeft"> </td><td class="mdescRight">Constructor with name that is displayed in error messages. <a href="#afb6802fda161cb0c1a4a05597f94aecc">More...</a><br/></td></tr>
<tr class="separator:afb6802fda161cb0c1a4a05597f94aecc inherit pub_methods_classOpenMS_1_1DefaultParamHandler"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a954da7eef3cfddda446574eaadd20abb inherit pub_methods_classOpenMS_1_1DefaultParamHandler"><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html#a954da7eef3cfddda446574eaadd20abb">DefaultParamHandler</a> (const <a class="el" href="classOpenMS_1_1DefaultParamHandler.html">DefaultParamHandler</a> &rhs)</td></tr>
<tr class="memdesc:a954da7eef3cfddda446574eaadd20abb inherit pub_methods_classOpenMS_1_1DefaultParamHandler"><td class="mdescLeft"> </td><td class="mdescRight">Copy constructor. <a href="#a954da7eef3cfddda446574eaadd20abb">More...</a><br/></td></tr>
<tr class="separator:a954da7eef3cfddda446574eaadd20abb inherit pub_methods_classOpenMS_1_1DefaultParamHandler"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a11e9d6dd34fe8860874aa8abe0ec121b inherit pub_methods_classOpenMS_1_1DefaultParamHandler"><td class="memItemLeft" align="right" valign="top">virtual </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html#a11e9d6dd34fe8860874aa8abe0ec121b">~DefaultParamHandler</a> ()</td></tr>
<tr class="memdesc:a11e9d6dd34fe8860874aa8abe0ec121b inherit pub_methods_classOpenMS_1_1DefaultParamHandler"><td class="mdescLeft"> </td><td class="mdescRight">Destructor. <a href="#a11e9d6dd34fe8860874aa8abe0ec121b">More...</a><br/></td></tr>
<tr class="separator:a11e9d6dd34fe8860874aa8abe0ec121b inherit pub_methods_classOpenMS_1_1DefaultParamHandler"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:ae6b6d68036a573a44f6609460ba2dfb6 inherit pub_methods_classOpenMS_1_1DefaultParamHandler"><td class="memItemLeft" align="right" valign="top">virtual <a class="el" href="classOpenMS_1_1DefaultParamHandler.html">DefaultParamHandler</a> & </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html#ae6b6d68036a573a44f6609460ba2dfb6">operator=</a> (const <a class="el" href="classOpenMS_1_1DefaultParamHandler.html">DefaultParamHandler</a> &rhs)</td></tr>
<tr class="memdesc:ae6b6d68036a573a44f6609460ba2dfb6 inherit pub_methods_classOpenMS_1_1DefaultParamHandler"><td class="mdescLeft"> </td><td class="mdescRight">Assignment operator. <a href="#ae6b6d68036a573a44f6609460ba2dfb6">More...</a><br/></td></tr>
<tr class="separator:ae6b6d68036a573a44f6609460ba2dfb6 inherit pub_methods_classOpenMS_1_1DefaultParamHandler"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:ac435f2dd4d9f9328db83af97129a8d7e inherit pub_methods_classOpenMS_1_1DefaultParamHandler"><td class="memItemLeft" align="right" valign="top">virtual bool </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html#ac435f2dd4d9f9328db83af97129a8d7e">operator==</a> (const <a class="el" href="classOpenMS_1_1DefaultParamHandler.html">DefaultParamHandler</a> &rhs) const </td></tr>
<tr class="memdesc:ac435f2dd4d9f9328db83af97129a8d7e inherit pub_methods_classOpenMS_1_1DefaultParamHandler"><td class="mdescLeft"> </td><td class="mdescRight">Equality operator. <a href="#ac435f2dd4d9f9328db83af97129a8d7e">More...</a><br/></td></tr>
<tr class="separator:ac435f2dd4d9f9328db83af97129a8d7e inherit pub_methods_classOpenMS_1_1DefaultParamHandler"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:abc8067511cfc949ae942ea2b08588f81 inherit pub_methods_classOpenMS_1_1DefaultParamHandler"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html#abc8067511cfc949ae942ea2b08588f81">setParameters</a> (const <a class="el" href="classOpenMS_1_1Param.html">Param</a> &param)</td></tr>
<tr class="memdesc:abc8067511cfc949ae942ea2b08588f81 inherit pub_methods_classOpenMS_1_1DefaultParamHandler"><td class="mdescLeft"> </td><td class="mdescRight">Sets the parameters. <a href="#abc8067511cfc949ae942ea2b08588f81">More...</a><br/></td></tr>
<tr class="separator:abc8067511cfc949ae942ea2b08588f81 inherit pub_methods_classOpenMS_1_1DefaultParamHandler"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a7f6aab5a7dfbdd1c062a4352a29361f3 inherit pub_methods_classOpenMS_1_1DefaultParamHandler"><td class="memItemLeft" align="right" valign="top">const <a class="el" href="classOpenMS_1_1Param.html">Param</a> & </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html#a7f6aab5a7dfbdd1c062a4352a29361f3">getParameters</a> () const </td></tr>
<tr class="memdesc:a7f6aab5a7dfbdd1c062a4352a29361f3 inherit pub_methods_classOpenMS_1_1DefaultParamHandler"><td class="mdescLeft"> </td><td class="mdescRight">Non-mutable access to the parameters. <a href="#a7f6aab5a7dfbdd1c062a4352a29361f3">More...</a><br/></td></tr>
<tr class="separator:a7f6aab5a7dfbdd1c062a4352a29361f3 inherit pub_methods_classOpenMS_1_1DefaultParamHandler"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a02f02fa9832ca3e8d47c575a39803a2a inherit pub_methods_classOpenMS_1_1DefaultParamHandler"><td class="memItemLeft" align="right" valign="top">const <a class="el" href="classOpenMS_1_1Param.html">Param</a> & </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html#a02f02fa9832ca3e8d47c575a39803a2a">getDefaults</a> () const </td></tr>
<tr class="memdesc:a02f02fa9832ca3e8d47c575a39803a2a inherit pub_methods_classOpenMS_1_1DefaultParamHandler"><td class="mdescLeft"> </td><td class="mdescRight">Non-mutable access to the default parameters. <a href="#a02f02fa9832ca3e8d47c575a39803a2a">More...</a><br/></td></tr>
<tr class="separator:a02f02fa9832ca3e8d47c575a39803a2a inherit pub_methods_classOpenMS_1_1DefaultParamHandler"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:aaee0f2845288173de9f6ad47e6ad31d5 inherit pub_methods_classOpenMS_1_1DefaultParamHandler"><td class="memItemLeft" align="right" valign="top">const <a class="el" href="classOpenMS_1_1String.html">String</a> & </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html#aaee0f2845288173de9f6ad47e6ad31d5">getName</a> () const </td></tr>
<tr class="memdesc:aaee0f2845288173de9f6ad47e6ad31d5 inherit pub_methods_classOpenMS_1_1DefaultParamHandler"><td class="mdescLeft"> </td><td class="mdescRight">Non-mutable access to the name. <a href="#aaee0f2845288173de9f6ad47e6ad31d5">More...</a><br/></td></tr>
<tr class="separator:aaee0f2845288173de9f6ad47e6ad31d5 inherit pub_methods_classOpenMS_1_1DefaultParamHandler"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a77d37f2e1c12e8bd33ea0e660a89e927 inherit pub_methods_classOpenMS_1_1DefaultParamHandler"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html#a77d37f2e1c12e8bd33ea0e660a89e927">setName</a> (const <a class="el" href="classOpenMS_1_1String.html">String</a> &name)</td></tr>
<tr class="memdesc:a77d37f2e1c12e8bd33ea0e660a89e927 inherit pub_methods_classOpenMS_1_1DefaultParamHandler"><td class="mdescLeft"> </td><td class="mdescRight">Mutable access to the name. <a href="#a77d37f2e1c12e8bd33ea0e660a89e927">More...</a><br/></td></tr>
<tr class="separator:a77d37f2e1c12e8bd33ea0e660a89e927 inherit pub_methods_classOpenMS_1_1DefaultParamHandler"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a768d4a2093627a2f34728656a9721bdf inherit pub_methods_classOpenMS_1_1DefaultParamHandler"><td class="memItemLeft" align="right" valign="top">const std::vector< <a class="el" href="classOpenMS_1_1String.html">String</a> > & </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html#a768d4a2093627a2f34728656a9721bdf">getSubsections</a> () const </td></tr>
<tr class="memdesc:a768d4a2093627a2f34728656a9721bdf inherit pub_methods_classOpenMS_1_1DefaultParamHandler"><td class="mdescLeft"> </td><td class="mdescRight">Non-mutable access to the registered subsections. <a href="#a768d4a2093627a2f34728656a9721bdf">More...</a><br/></td></tr>
<tr class="separator:a768d4a2093627a2f34728656a9721bdf inherit pub_methods_classOpenMS_1_1DefaultParamHandler"><td class="memSeparator" colspan="2"> </td></tr>
</table><table class="memberdecls">
<tr class="heading"><td colspan="2"><h2 class="groupheader"><a name="pub-static-methods"></a>
Static Public Member Functions</h2></td></tr>
<tr class="memitem:a81483ea6deb5aa7b6e11d0c3c871f532"><td class="memItemLeft" align="right" valign="top">static <a class="el" href="classOpenMS_1_1FeatureFinderAlgorithm.html">FeatureFinderAlgorithm</a><br class="typebreak"/>
< <a class="el" href="namespaceOpenMS.html#a013338b7bdbb5c3b4c78666656070e23">PeakType</a>, FeatureType > * </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1FeatureFinderAlgorithmMRM.html#a81483ea6deb5aa7b6e11d0c3c871f532">create</a> ()</td></tr>
<tr class="separator:a81483ea6deb5aa7b6e11d0c3c871f532"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:af73fd15708e50e77665070023a09cc87"><td class="memItemLeft" align="right" valign="top">static const <a class="el" href="classOpenMS_1_1String.html">String</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1FeatureFinderAlgorithmMRM.html#af73fd15708e50e77665070023a09cc87">getProductName</a> ()</td></tr>
<tr class="separator:af73fd15708e50e77665070023a09cc87"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="inherit_header pub_static_methods_classOpenMS_1_1FeatureFinderAlgorithm"><td colspan="2" onclick="javascript:toggleInherit('pub_static_methods_classOpenMS_1_1FeatureFinderAlgorithm')"><img src="closed.png" alt="-"/> Static Public Member Functions inherited from <a class="el" href="classOpenMS_1_1FeatureFinderAlgorithm.html">FeatureFinderAlgorithm< PeakType, FeatureType ></a></td></tr>
<tr class="memitem:a0619c54ebc0b33a02eb71f942bb00111 inherit pub_static_methods_classOpenMS_1_1FeatureFinderAlgorithm"><td class="memItemLeft" align="right" valign="top">static void </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1FeatureFinderAlgorithm.html#a0619c54ebc0b33a02eb71f942bb00111">registerChildren</a> ()</td></tr>
<tr class="memdesc:a0619c54ebc0b33a02eb71f942bb00111 inherit pub_static_methods_classOpenMS_1_1FeatureFinderAlgorithm"><td class="mdescLeft"> </td><td class="mdescRight">register all derived classes here (see <a class="el" href="FeatureFinderAlgorithm__impl_8h.html">FeatureFinderAlgorithm_impl.h</a>) <a href="#a0619c54ebc0b33a02eb71f942bb00111">More...</a><br/></td></tr>
<tr class="separator:a0619c54ebc0b33a02eb71f942bb00111 inherit pub_static_methods_classOpenMS_1_1FeatureFinderAlgorithm"><td class="memSeparator" colspan="2"> </td></tr>
</table><table class="memberdecls">
<tr class="heading"><td colspan="2"><h2 class="groupheader"><a name="pro-methods"></a>
Protected Member Functions</h2></td></tr>
<tr class="memitem:a59dd43367e76a334f8f481b100a275d0"><td class="memItemLeft" align="right" valign="top"><a class="el" href="group__Concept.html#gace75bfb1aba684e874dffee13738bd15">DoubleReal</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1FeatureFinderAlgorithmMRM.html#a59dd43367e76a334f8f481b100a275d0">fitRT_</a> (std::vector< <a class="el" href="namespaceOpenMS.html#a013338b7bdbb5c3b4c78666656070e23">PeakType</a> > &rt_input_data, <a class="el" href="classOpenMS_1_1InterpolationModel.html">InterpolationModel</a> *&model) const </td></tr>
<tr class="separator:a59dd43367e76a334f8f481b100a275d0"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a776f7572fc4f466e9527ca233471920d"><td class="memItemLeft" align="right" valign="top">virtual void </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1FeatureFinderAlgorithmMRM.html#a776f7572fc4f466e9527ca233471920d">updateMembers_</a> ()</td></tr>
<tr class="memdesc:a776f7572fc4f466e9527ca233471920d"><td class="mdescLeft"> </td><td class="mdescRight">This method is used to update extra member variables at the end of the <a class="el" href="classOpenMS_1_1DefaultParamHandler.html#abc8067511cfc949ae942ea2b08588f81" title="Sets the parameters. ">setParameters()</a> method. <a href="#a776f7572fc4f466e9527ca233471920d">More...</a><br/></td></tr>
<tr class="separator:a776f7572fc4f466e9527ca233471920d"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="inherit_header pro_methods_classOpenMS_1_1DefaultParamHandler"><td colspan="2" onclick="javascript:toggleInherit('pro_methods_classOpenMS_1_1DefaultParamHandler')"><img src="closed.png" alt="-"/> Protected Member Functions inherited from <a class="el" href="classOpenMS_1_1DefaultParamHandler.html">DefaultParamHandler</a></td></tr>
<tr class="memitem:a2802c591e6d7fd3fd9cc35f5e875d0ba inherit pro_methods_classOpenMS_1_1DefaultParamHandler"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html#a2802c591e6d7fd3fd9cc35f5e875d0ba">defaultsToParam_</a> ()</td></tr>
<tr class="memdesc:a2802c591e6d7fd3fd9cc35f5e875d0ba inherit pro_methods_classOpenMS_1_1DefaultParamHandler"><td class="mdescLeft"> </td><td class="mdescRight">Updates the parameters after the defaults have been set in the constructor. <a href="#a2802c591e6d7fd3fd9cc35f5e875d0ba">More...</a><br/></td></tr>
<tr class="separator:a2802c591e6d7fd3fd9cc35f5e875d0ba inherit pro_methods_classOpenMS_1_1DefaultParamHandler"><td class="memSeparator" colspan="2"> </td></tr>
</table><table class="memberdecls">
<tr class="heading"><td colspan="2"><h2 class="groupheader"><a name="inherited"></a>
Additional Inherited Members</h2></td></tr>
<tr class="inherit_header pro_attribs_classOpenMS_1_1FeatureFinderAlgorithm"><td colspan="2" onclick="javascript:toggleInherit('pro_attribs_classOpenMS_1_1FeatureFinderAlgorithm')"><img src="closed.png" alt="-"/> Protected Attributes inherited from <a class="el" href="classOpenMS_1_1FeatureFinderAlgorithm.html">FeatureFinderAlgorithm< PeakType, FeatureType ></a></td></tr>
<tr class="memitem:a365c5cf67d48519199fe00cb5688d628 inherit pro_attribs_classOpenMS_1_1FeatureFinderAlgorithm"><td class="memItemLeft" align="right" valign="top">const <a class="el" href="classOpenMS_1_1FeatureFinderAlgorithm.html#adf6f376e844058d129ce8ba868276643">MapType</a> * </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1FeatureFinderAlgorithm.html#a365c5cf67d48519199fe00cb5688d628">map_</a></td></tr>
<tr class="memdesc:a365c5cf67d48519199fe00cb5688d628 inherit pro_attribs_classOpenMS_1_1FeatureFinderAlgorithm"><td class="mdescLeft"> </td><td class="mdescRight">Input data pointer. <a href="#a365c5cf67d48519199fe00cb5688d628">More...</a><br/></td></tr>
<tr class="separator:a365c5cf67d48519199fe00cb5688d628 inherit pro_attribs_classOpenMS_1_1FeatureFinderAlgorithm"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a5f09052343ef99616ad653897841ce3e inherit pro_attribs_classOpenMS_1_1FeatureFinderAlgorithm"><td class="memItemLeft" align="right" valign="top"><a class="el" href="classOpenMS_1_1FeatureFinderAlgorithm.html#a21ea3968c35235b6b3cd78a2190280d9">FeatureMapType</a> * </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1FeatureFinderAlgorithm.html#a5f09052343ef99616ad653897841ce3e">features_</a></td></tr>
<tr class="memdesc:a5f09052343ef99616ad653897841ce3e inherit pro_attribs_classOpenMS_1_1FeatureFinderAlgorithm"><td class="mdescLeft"> </td><td class="mdescRight">Output data pointer. <a href="#a5f09052343ef99616ad653897841ce3e">More...</a><br/></td></tr>
<tr class="separator:a5f09052343ef99616ad653897841ce3e inherit pro_attribs_classOpenMS_1_1FeatureFinderAlgorithm"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:adf68cb378c76b322b2cc4dbb2c145a3e inherit pro_attribs_classOpenMS_1_1FeatureFinderAlgorithm"><td class="memItemLeft" align="right" valign="top"><a class="el" href="classOpenMS_1_1FeatureFinder.html">FeatureFinder</a> * </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1FeatureFinderAlgorithm.html#adf68cb378c76b322b2cc4dbb2c145a3e">ff_</a></td></tr>
<tr class="memdesc:adf68cb378c76b322b2cc4dbb2c145a3e inherit pro_attribs_classOpenMS_1_1FeatureFinderAlgorithm"><td class="mdescLeft"> </td><td class="mdescRight">Pointer to the calling <a class="el" href="classOpenMS_1_1FeatureFinder.html" title="The main feature finder class. ">FeatureFinder</a> that is used to access the feature flags. <a href="#adf68cb378c76b322b2cc4dbb2c145a3e">More...</a><br/></td></tr>
<tr class="separator:adf68cb378c76b322b2cc4dbb2c145a3e inherit pro_attribs_classOpenMS_1_1FeatureFinderAlgorithm"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="inherit_header pro_attribs_classOpenMS_1_1DefaultParamHandler"><td colspan="2" onclick="javascript:toggleInherit('pro_attribs_classOpenMS_1_1DefaultParamHandler')"><img src="closed.png" alt="-"/> Protected Attributes inherited from <a class="el" href="classOpenMS_1_1DefaultParamHandler.html">DefaultParamHandler</a></td></tr>
<tr class="memitem:a28c73e623c63a4fe3bfceb1ae8274f39 inherit pro_attribs_classOpenMS_1_1DefaultParamHandler"><td class="memItemLeft" align="right" valign="top"><a class="el" href="classOpenMS_1_1Param.html">Param</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html#a28c73e623c63a4fe3bfceb1ae8274f39">param_</a></td></tr>
<tr class="memdesc:a28c73e623c63a4fe3bfceb1ae8274f39 inherit pro_attribs_classOpenMS_1_1DefaultParamHandler"><td class="mdescLeft"> </td><td class="mdescRight">Container for current parameters. <a href="#a28c73e623c63a4fe3bfceb1ae8274f39">More...</a><br/></td></tr>
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<tr class="memitem:a761b1937850c141d0c6fff0e4d633a04 inherit pro_attribs_classOpenMS_1_1DefaultParamHandler"><td class="memItemLeft" align="right" valign="top"><a class="el" href="classOpenMS_1_1Param.html">Param</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html#a761b1937850c141d0c6fff0e4d633a04">defaults_</a></td></tr>
<tr class="memdesc:a761b1937850c141d0c6fff0e4d633a04 inherit pro_attribs_classOpenMS_1_1DefaultParamHandler"><td class="mdescLeft"> </td><td class="mdescRight">Container for default parameters. This member should be filled in the constructor of derived classes! <a href="#a761b1937850c141d0c6fff0e4d633a04">More...</a><br/></td></tr>
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<tr class="memitem:ac4b0e20bc59c7a5afe016c69067e428c inherit pro_attribs_classOpenMS_1_1DefaultParamHandler"><td class="memItemLeft" align="right" valign="top">std::vector< <a class="el" href="classOpenMS_1_1String.html">String</a> > </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html#ac4b0e20bc59c7a5afe016c69067e428c">subsections_</a></td></tr>
<tr class="memdesc:ac4b0e20bc59c7a5afe016c69067e428c inherit pro_attribs_classOpenMS_1_1DefaultParamHandler"><td class="mdescLeft"> </td><td class="mdescRight">Container for registered subsections. This member should be filled in the constructor of derived classes! <a href="#ac4b0e20bc59c7a5afe016c69067e428c">More...</a><br/></td></tr>
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<tr class="memitem:a5a51f3f150b09068256195e934339a19 inherit pro_attribs_classOpenMS_1_1DefaultParamHandler"><td class="memItemLeft" align="right" valign="top"><a class="el" href="classOpenMS_1_1String.html">String</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html#a5a51f3f150b09068256195e934339a19">error_name_</a></td></tr>
<tr class="memdesc:a5a51f3f150b09068256195e934339a19 inherit pro_attribs_classOpenMS_1_1DefaultParamHandler"><td class="mdescLeft"> </td><td class="mdescRight">Name that is displayed in error messages during the parameter checking. <a href="#a5a51f3f150b09068256195e934339a19">More...</a><br/></td></tr>
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<tr class="memitem:a7c3b265b697a57615da5cd3274780efd inherit pro_attribs_classOpenMS_1_1DefaultParamHandler"><td class="memItemLeft" align="right" valign="top">bool </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html#a7c3b265b697a57615da5cd3274780efd">check_defaults_</a></td></tr>
<tr class="memdesc:a7c3b265b697a57615da5cd3274780efd inherit pro_attribs_classOpenMS_1_1DefaultParamHandler"><td class="mdescLeft"> </td><td class="mdescRight">If this member is set to false no checking if parameters in done;. <a href="#a7c3b265b697a57615da5cd3274780efd">More...</a><br/></td></tr>
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<tr class="memitem:aba444910e4fccb93f91bf7ab135f508a inherit pro_attribs_classOpenMS_1_1DefaultParamHandler"><td class="memItemLeft" align="right" valign="top">bool </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html#aba444910e4fccb93f91bf7ab135f508a">warn_empty_defaults_</a></td></tr>
<tr class="memdesc:aba444910e4fccb93f91bf7ab135f508a inherit pro_attribs_classOpenMS_1_1DefaultParamHandler"><td class="mdescLeft"> </td><td class="mdescRight">If this member is set to false no warning is emitted when defaults are empty;. <a href="#aba444910e4fccb93f91bf7ab135f508a">More...</a><br/></td></tr>
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<a name="details" id="details"></a><h2 class="groupheader">Detailed Description</h2>
<div class="textblock"><h3>template<class PeakType, class FeatureType><br/>
class OpenMS::FeatureFinderAlgorithmMRM< PeakType, FeatureType ></h3>
<p><a class="el" href="classOpenMS_1_1FeatureFinderAlgorithm.html" title="Abstract base class for FeatureFinder algorithms. ">FeatureFinderAlgorithm</a> for MRM experiments. </p>
<dl class="experimental"><dt><b><a class="el" href="experimental.html#_experimental000004">Experimental classes:</a></b></dt><dd>This tool has not been tested thoroughly and might behave not as expected!</dd></dl>
<p>This very simple algorithm has mainly been tested on dated generated on an ABI/SCIEX QTrap 4000. Maybe this algorithm cannot be directly applied on data generated by other mass spectrometers.</p>
<p><a class="el" href="classOpenMS_1_1Precursor.html" title="Precursor meta information. ">Precursor</a> m/z information (Q1) is stored in the "MZ" metavalue of each feature! The feature's m/z itself is the Q3's ion m/z.</p>
<B>Parameters of this class are:</B><BR><BR>
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<td style="vertical-align:top"><b>min_rt_distance</b></td>
<td style="vertical-align:top">float</td><td style="vertical-align:top">10</td>
<td style="vertical-align:top">min: 0</td><td style="vertical-align:top">Minimal distance of MRM features in seconds.</td>
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<td style="vertical-align:top"><i>min_num_peaks_per_feature</i></td>
<td style="vertical-align:top">int</td><td style="vertical-align:top">5</td>
<td style="vertical-align:top">min: 1</td><td style="vertical-align:top">Minimal number of peaks which are needed for a single feature</td>
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<td style="vertical-align:top"><b>min_signal_to_noise_ratio</b></td>
<td style="vertical-align:top">float</td><td style="vertical-align:top">2</td>
<td style="vertical-align:top">min: 0</td><td style="vertical-align:top">Minimal S/N ratio a peak must have to be taken into account. Set to zero if the MRM-traces contains mostly signals, and no noise.</td>
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<td style="vertical-align:top"><i>write_debug_files</i></td>
<td style="vertical-align:top">string</td><td style="vertical-align:top">false</td>
<td style="vertical-align:top">true, false</td><td style="vertical-align:top">If set to true, for each feature a plot will be created, in the subdirectory 'debug'</td>
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<td style="vertical-align:top">string</td><td style="vertical-align:top">false</td>
<td style="vertical-align:top">true, false</td><td style="vertical-align:top">If set to true, each trace, which is in this case a part of the MRM monitoring trace with signal is resampled, using the minimal distance of two data points in RT dimension</td>
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<td style="vertical-align:top"><i>write_debuginfo</i></td>
<td style="vertical-align:top">string</td><td style="vertical-align:top">false</td>
<td style="vertical-align:top">true, false</td><td style="vertical-align:top">If set to true, debug messages are written, the output can be somewhat lengthy.</td>
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<LI> If a section name is documented, the documentation is displayed as tooltip.
<LI> Advanced parameter names are italic.
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<td class="memname">typedef <a class="el" href="classOpenMS_1_1MSSpectrum.html#ae2fc906f686ab141e88c57655afd1774">SpectrumType::FloatDataArrays</a> <a class="el" href="classOpenMS_1_1FeatureFinderAlgorithmMRM.html#a4097a067534171488208ac7b101b5c0c">FloatDataArrays</a></td>
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<td class="memname">typedef <a class="el" href="classOpenMS_1_1FeatureFinderAlgorithm.html">FeatureFinderAlgorithm</a><<a class="el" href="namespaceOpenMS.html#a013338b7bdbb5c3b4c78666656070e23">PeakType</a>, FeatureType>::<a class="el" href="classOpenMS_1_1FeatureFinderAlgorithm.html#adf6f376e844058d129ce8ba868276643">MapType</a> <a class="el" href="classOpenMS_1_1FeatureFinderAlgorithm.html#adf6f376e844058d129ce8ba868276643">MapType</a></td>
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<h2 class="groupheader">Member Enumeration Documentation</h2>
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<h2 class="groupheader">Constructor & Destructor Documentation</h2>
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<td class="memname"><a class="el" href="classOpenMS_1_1FeatureFinderAlgorithmMRM.html">FeatureFinderAlgorithmMRM</a> </td>
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<p>default constructor </p>
<p>References <a class="el" href="classOpenMS_1_1StringList.html#a5f86b59b547048311dd50df5fb6d3bb5">StringList::create()</a>, <a class="el" href="classOpenMS_1_1DefaultParamHandler.html#a761b1937850c141d0c6fff0e4d633a04">DefaultParamHandler::defaults_</a>, <a class="el" href="classOpenMS_1_1DefaultParamHandler.html#a2802c591e6d7fd3fd9cc35f5e875d0ba">DefaultParamHandler::defaultsToParam_()</a>, <a class="el" href="classOpenMS_1_1Param.html#aadc7a8536eb15f8c6fa05eefca0e25be">Param::setMinFloat()</a>, <a class="el" href="classOpenMS_1_1Param.html#a3a23089ec40eeed796efe7b69ecb02ac">Param::setMinInt()</a>, <a class="el" href="classOpenMS_1_1Param.html#a10933782584a46cded91c40574027ee2">Param::setValidStrings()</a>, and <a class="el" href="classOpenMS_1_1Param.html#a432099944e11263aa20aaf8ea1389790">Param::setValue()</a>.</p>
<p>Referenced by <a class="el" href="classOpenMS_1_1FeatureFinderAlgorithmMRM.html#a81483ea6deb5aa7b6e11d0c3c871f532">FeatureFinderAlgorithmMRM< PeakType, FeatureType >::create()</a>.</p>
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<h2 class="groupheader">Member Function Documentation</h2>
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<td class="memname">static <a class="el" href="classOpenMS_1_1FeatureFinderAlgorithm.html">FeatureFinderAlgorithm</a><<a class="el" href="namespaceOpenMS.html#a013338b7bdbb5c3b4c78666656070e23">PeakType</a>, FeatureType>* create </td>
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<p>References <a class="el" href="classOpenMS_1_1FeatureFinderAlgorithmMRM.html#a655f6cc951b2ed0b71161df3275dfe3f">FeatureFinderAlgorithmMRM< PeakType, FeatureType >::FeatureFinderAlgorithmMRM()</a>.</p>
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<td class="memname"><a class="el" href="group__Concept.html#gace75bfb1aba684e874dffee13738bd15">DoubleReal</a> fitRT_ </td>
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<td class="paramtype">std::vector< <a class="el" href="namespaceOpenMS.html#a013338b7bdbb5c3b4c78666656070e23">PeakType</a> > & </td>
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<p>References <a class="el" href="classOpenMS_1_1EmgFitter1D.html#a250458ea3a48557d8a6ccaa2df1ee1ec">EmgFitter1D::fit1d()</a>, and <a class="el" href="classOpenMS_1_1DefaultParamHandler.html#abc8067511cfc949ae942ea2b08588f81">DefaultParamHandler::setParameters()</a>.</p>
<p>Referenced by <a class="el" href="classOpenMS_1_1FeatureFinderAlgorithmMRM.html#a72fcb26a14f6beb1c3fbace9ab3e7dbb">FeatureFinderAlgorithmMRM< PeakType, FeatureType >::run()</a>.</p>
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<p>Main method for actual <a class="el" href="classOpenMS_1_1FeatureFinder.html" title="The main feature finder class. ">FeatureFinder</a>. </p>
<p>Implements <a class="el" href="classOpenMS_1_1FeatureFinderAlgorithm.html#a18954417d3124a8095783ea13dc6d00b">FeatureFinderAlgorithm< PeakType, FeatureType ></a>.</p>
<p>References <a class="el" href="classOpenMS_1_1ConvexHull2D.html#ad84ba51670fc0bd9b6b2091ba27c3013">ConvexHull2D::addPoints()</a>, <a class="el" href="classOpenMS_1_1FeatureFinderAlgorithm.html#a5f09052343ef99616ad653897841ce3e">FeatureFinderAlgorithm< PeakType, FeatureType >::features_</a>, <a class="el" href="classOpenMS_1_1FeatureFinderAlgorithm.html#adf68cb378c76b322b2cc4dbb2c145a3e">FeatureFinderAlgorithm< PeakType, FeatureType >::ff_</a>, <a class="el" href="classOpenMS_1_1GaussFilter.html#ab978eb8c2316573b1753199c8af2b041">GaussFilter::filter()</a>, <a class="el" href="classOpenMS_1_1FeatureFinderAlgorithmMRM.html#a59dd43367e76a334f8f481b100a275d0">FeatureFinderAlgorithmMRM< PeakType, FeatureType >::fitRT_()</a>, <a class="el" href="classOpenMS_1_1MSExperiment.html#a02fccfed86a20f8bd0f6b98c23fadb2e">MSExperiment< PeakT, ChromatogramPeakT >::getChromatograms()</a>, <a class="el" href="classOpenMS_1_1Feature.html#ad99bb8ba2103d6c52ee10ae6369b46e7">Feature::getConvexHulls()</a>, <a class="el" href="classOpenMS_1_1InterpolationModel.html#ac4534e8323ba5dc157bc4bba75096d50">InterpolationModel::getIntensity()</a>, <a class="el" href="classOpenMS_1_1MetaInfoInterface.html#aae35ae2dfad88d673b03c787aafca83d">MetaInfoInterface::getMetaValue()</a>, <a class="el" href="classOpenMS_1_1Peak2D.html#a6fefef82aae7a3208e71648e763d5ea4">Peak2D::getMZ()</a>, <a class="el" href="classOpenMS_1_1Feature.html#a0adf747960bee685e34bfbbe57a7089b">Feature::getOverallQuality()</a>, <a class="el" href="classOpenMS_1_1DefaultParamHandler.html#a7f6aab5a7dfbdd1c062a4352a29361f3">DefaultParamHandler::getParameters()</a>, <a class="el" href="classOpenMS_1_1Peak2D.html#ab4e0f356f837ce58e57695da114adce3">Peak2D::getRT()</a>, <a class="el" href="classOpenMS_1_1SignalToNoiseEstimator.html#a504423b06b9d69e88d2ff68c9050889a">SignalToNoiseEstimator< Container >::getSignalToNoise()</a>, <a class="el" href="classOpenMS_1_1Param.html#abd0f5571675ec99e1aa647b39e2a8711">Param::getValue()</a>, <a class="el" href="classOpenMS_1_1SignalToNoiseEstimator.html#a2fba92bbe2385c5e632a4a802b7e49ae">SignalToNoiseEstimator< Container >::init()</a>, <a class="el" href="classOpenMS_1_1FeatureFinderAlgorithm.html#a365c5cf67d48519199fe00cb5688d628">FeatureFinderAlgorithm< PeakType, FeatureType >::map_</a>, <a class="el" href="classOpenMS_1_1DefaultParamHandler.html#a28c73e623c63a4fe3bfceb1ae8274f39">DefaultParamHandler::param_</a>, <a class="el" href="classOpenMS_1_1LinearResampler.html#ab610fcc25c710938dccd156c33421773">LinearResampler::raster()</a>, <a class="el" href="classOpenMS_1_1FeatureFinderAlgorithmMRM.html#a80155586fa275b28773c9b203f52cabaaf388fcb6d444ef59841ef549ca6ee0da">FeatureFinderAlgorithmMRM< PeakType, FeatureType >::RT</a>, <a class="el" href="classOpenMS_1_1Peak1D.html#ab875c2479c6cd2a0189e4684bfa4f97d">Peak1D::setIntensity()</a>, <a class="el" href="classOpenMS_1_1Peak2D.html#ab875c2479c6cd2a0189e4684bfa4f97d">Peak2D::setIntensity()</a>, <a class="el" href="classOpenMS_1_1MetaInfoInterface.html#a135a7e818125b31198a8a65d9ac7a3d1">MetaInfoInterface::setMetaValue()</a>, <a class="el" href="classOpenMS_1_1ProductModel_3_012_01_4.html#a8cd14764d47842020930ef7023a2d912">ProductModel< 2 >::setModel()</a>, <a class="el" href="classOpenMS_1_1Feature.html#a59f31f35e2e4a45316651cebbb358a1d">Feature::setModelDescription()</a>, <a class="el" href="classOpenMS_1_1Peak1D.html#ab9c4ce5d172a75d6de2c6f5f1847c9ab">Peak1D::setMZ()</a>, <a class="el" href="classOpenMS_1_1Peak2D.html#a2694f0775c46d9076355cb85d9815425">Peak2D::setMZ()</a>, <a class="el" href="classOpenMS_1_1Feature.html#aeba0cded976431f70fbea5499218ce18">Feature::setOverallQuality()</a>, <a class="el" href="classOpenMS_1_1DefaultParamHandler.html#abc8067511cfc949ae942ea2b08588f81">DefaultParamHandler::setParameters()</a>, <a class="el" href="classOpenMS_1_1Peak2D.html#abbdecccbbcf763c6c5eae3b7c3cb915e">Peak2D::setPosition()</a>, <a class="el" href="classOpenMS_1_1ProgressLogger.html#a8852277abd03220cc7b80d6c1bed6fed">ProgressLogger::setProgress()</a>, <a class="el" href="classOpenMS_1_1Feature.html#a93cd3fc199fc903768e3b8d7fafaeb95">Feature::setQuality()</a>, <a class="el" href="classOpenMS_1_1Peak2D.html#a396c5ebcac2e70f9b9a478bb2456985b">Peak2D::setRT()</a>, <a class="el" href="classOpenMS_1_1EmgModel.html#a79142df18e1c10cc321e68ddb3ee72df">EmgModel::setSamples()</a>, <a class="el" href="classOpenMS_1_1Param.html#a432099944e11263aa20aaf8ea1389790">Param::setValue()</a>, <a class="el" href="classOpenMS_1_1MSExperiment.html#a9d78a687cf2a391198bb3cbc08bc06cb">MSExperiment< PeakT, ChromatogramPeakT >::size()</a>, <a class="el" href="classOpenMS_1_1ProgressLogger.html#af1c45ecd71b5041b70319249e8e73591">ProgressLogger::startProgress()</a>, and <a class="el" href="classOpenMS_1_1DataValue.html#a15274045457dcf54a03e7b417c9e7644">DataValue::toBool()</a>.</p>
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<td class="memname">virtual void updateMembers_ </td>
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<p>This method is used to update extra member variables at the end of the <a class="el" href="classOpenMS_1_1DefaultParamHandler.html#abc8067511cfc949ae942ea2b08588f81" title="Sets the parameters. ">setParameters()</a> method. </p>
<p>Also call it at the end of the derived classes' copy constructor and assignment operator.</p>
<p>The default implementation is empty. </p>
<p>Reimplemented from <a class="el" href="classOpenMS_1_1DefaultParamHandler.html#a776f7572fc4f466e9527ca233471920d">DefaultParamHandler</a>.</p>
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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 11:19:34 using doxygen 1.8.5</font></TD>
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