Package net.sf.mzmine.modules.visualization.spectra

Examples of net.sf.mzmine.modules.visualization.spectra.SpectraVisualizerWindow

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    if (command.equals("SHOW_MASSLIST")) {
      MassList selectedMassLists[] = tree
          .getSelectedObjects(MassList.class);
      for (MassList massList : selectedMassLists) {
        Scan scan = massList.getScan();
        SpectraVisualizerWindow window = SpectraVisualizerModule
            .showNewSpectrumWindow(scan.getDataFile(),
                scan.getScanNumber());
        MassListDataSet dataset = new MassListDataSet(massList);
        window.addDataSet(dataset, Color.green);
      }
    }

    if (command.equals("REMOVE_MASSLIST")) {
      MassList selectedMassLists[] = tree
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      int msmsScanNumber = bestPeak.getMostIntenseFragmentScanNumber();

      if (msmsScanNumber < 1)
        return;

      SpectraVisualizerWindow msmsPlot = SpectraVisualizerModule
          .showNewSpectrumWindow(dataFile, msmsScanNumber);

      if (msmsPlot == null)
        return;
      Map<DataPoint, String> annotation = formula.getMSMSannotation();

      if (annotation == null)
        return;
      msmsPlot.addAnnotation(annotation);

    }

  }
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    }

    if (clickedObject instanceof MassList) {
      MassList clickedMassList = (MassList) clickedObject;
      Scan clickedScan = clickedMassList.getScan();
      SpectraVisualizerWindow window = SpectraVisualizerModule
          .showNewSpectrumWindow(clickedScan.getDataFile(),
              clickedScan.getScanNumber());
      MassListDataSet dataset = new MassListDataSet(clickedMassList);
      window.addDataSet(dataset, Color.green);
    }

    if (clickedObject instanceof PeakListRow) {
      PeakListRow clickedPeak = (PeakListRow) clickedObject;
      PeakSummaryVisualizerModule.showNewPeakSummaryWindow(clickedPeak);
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Related Classes of net.sf.mzmine.modules.visualization.spectra.SpectraVisualizerWindow

  • net.sf.mzmine.data.DataPoint
  • net.sf.mzmine.data.IsotopePattern
  • net.sf.mzmine.data.PeakList
  • net.sf.mzmine.data.Scan
  • net.sf.mzmine.desktop.impl.projecttree.ProjectTreeMouseHandler
  • net.sf.mzmine.modules.peaklistmethods.identification.formulaprediction.ResultWindow
  • net.sf.mzmine.modules.visualization.spectra.datasets.IsotopesDataSet
  • net.sf.mzmine.modules.visualization.spectra.datasets.PeakListDataSet
  • net.sf.mzmine.modules.visualization.spectra.datasets.ScanDataSet
  • net.sf.mzmine.modules.visualization.spectra.datasets.SinglePeakDataSet
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