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*   Processing MSn Data
In the Chromatogram Processor window, you can view and process Xcalibur data-dependent experiments and product ion scanning raw data files and extract spectral trees (MSn spectra) from chromatograms. When you open Xcalibur data in a Chromatogram Processor window, the window displays a tree view control. Use this tree view control to select one or more product scans at any MSn stage. Deconvoluted components that are present are listed at the bottom of the tree control.
For additional information, see Using Components Detection and Spectra Deconvolution, Spectral Tree Arrangement, or Working with Detected Components.
When you apply component detection and spectra deconvolution procedures to data-dependent chromatograms, the application generates components as spectral trees. You can process the tree components in the same way as regular spectra. You can edit them in the Components Editor window, search them in spectral libraries, or classify them using the Spectra Classifier module. You can only view spectral trees in the Chromatogram Processor; to edit them, paste them into a Database Manager window to access all editing utilities.
For additional information, see Components Editor Module or Spectra Classifier Module.
Xcalibur data in a Chromatogram Processor window
 


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Related Topics:
  Supported GC/MS and LC/MS Data File Formats
  Working in a Chromatogram Processor Window
  Using the Chromatogram Pane
  Averaging Scans
  Processing the Data
  Using the Extracted Ion Chromatogram Features
  Using Components Detection and Spectra Deconvolution
  Processing Extracted Spectra
  Working with Detected Components
  Exporting Scans, Components, and Reduced Chromatograms
  Annotating Chromatographic Peaks
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