Package net.sf.mzmine.data.impl

Examples of net.sf.mzmine.data.impl.SimpleChromatographicPeak

185
186
187
188
189
190
191
192
193
194
195
      // Find the best fragmentation scan, if available
      int fragmentScan = ScanUtils.findBestFragmentScan(rawDataFile,
          finalRTRange, finalMZRange);

      SimpleChromatographicPeak newPeak = new SimpleChromatographicPeak(
          rawDataFile, mz, rt, height, area, scanNumbers,
          finalDataPoint, PeakStatus.ESTIMATED, representativeScan,
          fragmentScan, finalRTRange, finalMZRange,
          finalIntensityRange);
View Full Code Here
344
345
346
347
348
349
350
351
352
353
354
355
356
357
    // Set normalized retention time to all peaks in this row
    for (RawDataFile file : originalRow.getRawDataFiles()) {
      ChromatographicPeak originalPeak = originalRow.getPeak(file);
      if (originalPeak != null) {
        SimpleChromatographicPeak normalizedPeak = new SimpleChromatographicPeak(
            originalPeak);
        PeakUtils.copyPeakProperties(originalPeak, normalizedPeak);
        normalizedPeak.setRT(normalizedRT);
        normalizedRow.addPeak(file, normalizedPeak);
      }
    }

    return normalizedRow;
View Full Code Here
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
        ChromatographicPeak originalPeak = originalpeakListRow
            .getPeak(file);
        if (originalPeak != null) {

          SimpleChromatographicPeak normalizedPeak = new SimpleChromatographicPeak(
              originalPeak);
          PeakUtils.copyPeakProperties(originalPeak, normalizedPeak);

          double normalizedHeight = originalPeak.getHeight()
              / normalizationFactor;
          double normalizedArea = originalPeak.getArea()
              / normalizationFactor;
          normalizedPeak.setHeight(normalizedHeight);
          normalizedPeak.setArea(normalizedArea);

          SimplePeakListRow normalizedRow = rowMap
              .get(originalpeakListRow);

          if (normalizedRow == null) {
View Full Code Here
TOP

Related Classes of net.sf.mzmine.data.impl.SimpleChromatographicPeak

  • net.sf.mzmine.modules.peaklistmethods.filtering.duplicatefilter.DuplicateFilterTask
  • net.sf.mzmine.modules.peaklistmethods.filtering.rowsfilter.RowsFilterTask
  • net.sf.mzmine.modules.peaklistmethods.gapfilling.peakfinder.Gap
  • net.sf.mzmine.modules.peaklistmethods.isotopes.deisotoper.IsotopeGrouperTask
  • net.sf.mzmine.modules.peaklistmethods.normalization.linear.LinearNormalizerTask
  • net.sf.mzmine.modules.peaklistmethods.normalization.rtnormalizer.RTNormalizerTask
  • net.sf.mzmine.modules.peaklistmethods.normalization.standardcompound.StandardCompoundNormalizerTask
  • net.sf.mzmine.modules.peaklistmethods.peakpicking.smoothing.SmoothingTask
  • net.sf.mzmine.modules.projectmethods.projectload.version_2_0.PeakListOpenHandler_2_0
  • net.sf.mzmine.modules.projectmethods.projectload.version_2_3.PeakListOpenHandler_2_3
    • Copyright © 2018 www.massapicom. All rights reserved.
    All source code are property of their respective owners. Java is a trademark of Sun Microsystems, Inc and owned by ORACLE Inc. Contact coftware#gmail.com.