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<HTML>
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<TITLE>OpenSwathHelper Class 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_1OpenSwathHelper.html">OpenSwathHelper</a></li>  </ul>
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<a href="#pub-static-methods">Static Public Member Functions</a> &#124;
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<p>A helper class that is used by several OpenSWATH tools.  
 <a href="classOpenMS_1_1OpenSwathHelper.html#details">More...</a></p>

<p><code>#include &lt;<a class="el" href="OpenSwathHelper_8h_source.html">OpenMS/ANALYSIS/OPENSWATH/OpenSwathHelper.h</a>&gt;</code></p>
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<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:a36307242d32a7a1619073838a87ce671"><td class="memItemLeft" align="right" valign="top">static void&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1OpenSwathHelper.html#a36307242d32a7a1619073838a87ce671">selectSwathTransitions</a> (const <a class="el" href="classOpenMS_1_1TargetedExperiment.html">OpenMS::TargetedExperiment</a> &amp;targeted_exp, <a class="el" href="classOpenMS_1_1TargetedExperiment.html">OpenMS::TargetedExperiment</a> &amp;transition_exp_used, <a class="el" href="classdouble.html">double</a> min_upper_edge_dist, <a class="el" href="classdouble.html">double</a> lower, <a class="el" href="classdouble.html">double</a> upper)</td></tr>
<tr class="memdesc:a36307242d32a7a1619073838a87ce671"><td class="mdescLeft">&#160;</td><td class="mdescRight">Select transitions between lower and upper and write them into the new <a class="el" href="classOpenMS_1_1TargetedExperiment.html" title="This class stores an prediction of an SRM/MRM transition. ">TargetedExperiment</a>.  <a href="#a36307242d32a7a1619073838a87ce671">More...</a><br/></td></tr>
<tr class="separator:a36307242d32a7a1619073838a87ce671"><td class="memSeparator" colspan="2">&#160;</td></tr>
<tr class="memitem:ad407a5263ca24e0d1f66817ed1de792b"><td class="memItemLeft" align="right" valign="top">static void&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1OpenSwathHelper.html#ad407a5263ca24e0d1f66817ed1de792b">checkSwathMap</a> (const <a class="el" href="classOpenMS_1_1MSExperiment.html">OpenMS::MSExperiment</a>&lt; <a class="el" href="classOpenMS_1_1Peak1D.html">Peak1D</a> &gt; &amp;swath_map, <a class="el" href="classdouble.html">double</a> &amp;lower, <a class="el" href="classdouble.html">double</a> &amp;upper)</td></tr>
<tr class="memdesc:ad407a5263ca24e0d1f66817ed1de792b"><td class="mdescLeft">&#160;</td><td class="mdescRight">Get the lower / upper offset for this SWATH map and do some sanity checks.  <a href="#ad407a5263ca24e0d1f66817ed1de792b">More...</a><br/></td></tr>
<tr class="separator:ad407a5263ca24e0d1f66817ed1de792b"><td class="memSeparator" colspan="2">&#160;</td></tr>
<tr class="memitem:a6578765bec3923f66414c2d8e419a590"><td class="memItemLeft" align="right" valign="top">static void&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1OpenSwathHelper.html#a6578765bec3923f66414c2d8e419a590">selectSwathTransitions</a> (const <a class="el" href="structOpenSwath_1_1LightTargetedExperiment.html">OpenSwath::LightTargetedExperiment</a> &amp;targeted_exp, <a class="el" href="structOpenSwath_1_1LightTargetedExperiment.html">OpenSwath::LightTargetedExperiment</a> &amp;transition_exp_used, <a class="el" href="classdouble.html">double</a> min_upper_edge_dist, <a class="el" href="classdouble.html">double</a> lower, <a class="el" href="classdouble.html">double</a> upper)</td></tr>
<tr class="memdesc:a6578765bec3923f66414c2d8e419a590"><td class="mdescLeft">&#160;</td><td class="mdescRight">Select transitions between lower and upper and write them into the new <a class="el" href="classOpenMS_1_1TargetedExperiment.html" title="This class stores an prediction of an SRM/MRM transition. ">TargetedExperiment</a>.  <a href="#a6578765bec3923f66414c2d8e419a590">More...</a><br/></td></tr>
<tr class="separator:a6578765bec3923f66414c2d8e419a590"><td class="memSeparator" colspan="2">&#160;</td></tr>
<tr class="memitem:a58f5957aa8b970648d7cb611c76ed0f9"><td class="memTemplParams" colspan="2">template&lt;class TargetedExperimentT &gt; </td></tr>
<tr class="memitem:a58f5957aa8b970648d7cb611c76ed0f9"><td class="memTemplItemLeft" align="right" valign="top">static bool&#160;</td><td class="memTemplItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1OpenSwathHelper.html#a58f5957aa8b970648d7cb611c76ed0f9">checkSwathMapAndSelectTransitions</a> (const <a class="el" href="classOpenMS_1_1MSExperiment.html">OpenMS::MSExperiment</a>&lt; <a class="el" href="classOpenMS_1_1Peak1D.html">Peak1D</a> &gt; &amp;exp, const TargetedExperimentT &amp;targeted_exp, TargetedExperimentT &amp;transition_exp_used, <a class="el" href="classdouble.html">double</a> min_upper_edge_dist)</td></tr>
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<a name="details" id="details"></a><h2 class="groupheader">Detailed Description</h2>
<div class="textblock"><p>A helper class that is used by several OpenSWATH tools. </p>
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          <td class="memname">static void checkSwathMap </td>
          <td>(</td>
          <td class="paramtype">const <a class="el" href="classOpenMS_1_1MSExperiment.html">OpenMS::MSExperiment</a>&lt; <a class="el" href="classOpenMS_1_1Peak1D.html">Peak1D</a> &gt; &amp;&#160;</td>
          <td class="paramname"><em>swath_map</em>, </td>
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          <td class="paramkey"></td>
          <td></td>
          <td class="paramtype"><a class="el" href="classdouble.html">double</a> &amp;&#160;</td>
          <td class="paramname"><em>lower</em>, </td>
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          <td class="paramkey"></td>
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          <td class="paramtype"><a class="el" href="classdouble.html">double</a> &amp;&#160;</td>
          <td class="paramname"><em>upper</em>&#160;</td>
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          <td>)</td>
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<p>Get the lower / upper offset for this SWATH map and do some sanity checks. </p>

<p>Referenced by <a class="el" href="classOpenMS_1_1OpenSwathHelper.html#a58f5957aa8b970648d7cb611c76ed0f9">OpenSwathHelper::checkSwathMapAndSelectTransitions()</a>.</p>

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          <td class="memname">static bool checkSwathMapAndSelectTransitions </td>
          <td>(</td>
          <td class="paramtype">const <a class="el" href="classOpenMS_1_1MSExperiment.html">OpenMS::MSExperiment</a>&lt; <a class="el" href="classOpenMS_1_1Peak1D.html">Peak1D</a> &gt; &amp;&#160;</td>
          <td class="paramname"><em>exp</em>, </td>
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          <td class="paramkey"></td>
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          <td class="paramtype">const TargetedExperimentT &amp;&#160;</td>
          <td class="paramname"><em>targeted_exp</em>, </td>
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          <td class="paramtype">TargetedExperimentT &amp;&#160;</td>
          <td class="paramname"><em>transition_exp_used</em>, </td>
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          <td class="paramkey"></td>
          <td></td>
          <td class="paramtype"><a class="el" href="classdouble.html">double</a>&#160;</td>
          <td class="paramname"><em>min_upper_edge_dist</em>&#160;</td>
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          <td>)</td>
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<p>References <a class="el" href="classOpenMS_1_1OpenSwathHelper.html#ad407a5263ca24e0d1f66817ed1de792b">OpenSwathHelper::checkSwathMap()</a>, <a class="el" href="classOpenMS_1_1DocumentIdentifier.html#aee7ac99be667b810be1b096691c58efa">DocumentIdentifier::getLoadedFilePath()</a>, <a class="el" href="classOpenMS_1_1OpenSwathHelper.html#a36307242d32a7a1619073838a87ce671">OpenSwathHelper::selectSwathTransitions()</a>, and <a class="el" href="classOpenMS_1_1MSExperiment.html#a9d78a687cf2a391198bb3cbc08bc06cb">MSExperiment&lt; PeakT, ChromatogramPeakT &gt;::size()</a>.</p>

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          <td class="memname">static void selectSwathTransitions </td>
          <td>(</td>
          <td class="paramtype">const <a class="el" href="classOpenMS_1_1TargetedExperiment.html">OpenMS::TargetedExperiment</a> &amp;&#160;</td>
          <td class="paramname"><em>targeted_exp</em>, </td>
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          <td class="paramkey"></td>
          <td></td>
          <td class="paramtype"><a class="el" href="classOpenMS_1_1TargetedExperiment.html">OpenMS::TargetedExperiment</a> &amp;&#160;</td>
          <td class="paramname"><em>transition_exp_used</em>, </td>
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          <td class="paramkey"></td>
          <td></td>
          <td class="paramtype"><a class="el" href="classdouble.html">double</a>&#160;</td>
          <td class="paramname"><em>min_upper_edge_dist</em>, </td>
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          <td class="paramkey"></td>
          <td></td>
          <td class="paramtype"><a class="el" href="classdouble.html">double</a>&#160;</td>
          <td class="paramname"><em>lower</em>, </td>
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          <td class="paramkey"></td>
          <td></td>
          <td class="paramtype"><a class="el" href="classdouble.html">double</a>&#160;</td>
          <td class="paramname"><em>upper</em>&#160;</td>
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          <td>)</td>
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<p>Select transitions between lower and upper and write them into the new <a class="el" href="classOpenMS_1_1TargetedExperiment.html" title="This class stores an prediction of an SRM/MRM transition. ">TargetedExperiment</a>. </p>

<p>Referenced by <a class="el" href="classOpenMS_1_1OpenSwathHelper.html#a58f5957aa8b970648d7cb611c76ed0f9">OpenSwathHelper::checkSwathMapAndSelectTransitions()</a>.</p>

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          <td class="memname">static void selectSwathTransitions </td>
          <td>(</td>
          <td class="paramtype">const <a class="el" href="structOpenSwath_1_1LightTargetedExperiment.html">OpenSwath::LightTargetedExperiment</a> &amp;&#160;</td>
          <td class="paramname"><em>targeted_exp</em>, </td>
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          <td class="paramkey"></td>
          <td></td>
          <td class="paramtype"><a class="el" href="structOpenSwath_1_1LightTargetedExperiment.html">OpenSwath::LightTargetedExperiment</a> &amp;&#160;</td>
          <td class="paramname"><em>transition_exp_used</em>, </td>
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          <td class="paramkey"></td>
          <td></td>
          <td class="paramtype"><a class="el" href="classdouble.html">double</a>&#160;</td>
          <td class="paramname"><em>min_upper_edge_dist</em>, </td>
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          <td class="paramkey"></td>
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          <td class="paramtype"><a class="el" href="classdouble.html">double</a>&#160;</td>
          <td class="paramname"><em>lower</em>, </td>
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          <td class="paramkey"></td>
          <td></td>
          <td class="paramtype"><a class="el" href="classdouble.html">double</a>&#160;</td>
          <td class="paramname"><em>upper</em>&#160;</td>
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          <td>)</td>
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<p>Select transitions between lower and upper and write them into the new <a class="el" href="classOpenMS_1_1TargetedExperiment.html" title="This class stores an prediction of an SRM/MRM transition. ">TargetedExperiment</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 11:19:27 using doxygen 1.8.5</font></TD>
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