The ProMass Browser Summary Report

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The ProMass Browser Summary Report

Author:		Mark Hail
Posted:		11/30/01; 8:51:32 AM
Topic:		The ProMass Browser Summary Report
Msg #:		117 (top msg in thread)
Prev/Next:		116/118
Reads:		4610

ProMass Xcali produces a top-level summary report (aka, ProMass Xcali Sample Browser) in addition to the chromatogram summary report that is produced. The ProMass Browser summary provides a quick way to navigate the analyses in a particular results directory. If you have specified target masses, the status of each of the target masses will be reported in a color-coded format. The status colors are reported based on the logic shown below. You can automatically launch the latest summary report by clicking the ProMass Browser button on the ProMassXcali HomePage. Also, check out the things to know section at the bottom of this page for more information about the ProMass Browser summary.

Result Code	Indication
	Target mass found in chromatogram as the most abundant component within specified mass error tolerance
	Target mass found as the most abundant in one of the chromatographic peaks, but NOT as most abundant component in chromatogram
	Target mass found in chromatogram with either or all of the following: (a) other components present in spectrum at greater than specified relative abundance threshold (b) low spectral quality (low intensity and/or score)
	Target mass found in chromatogram, but NOT as the most abundant in any of the chromatographic peaks
	Target mass NOT found in chromatogram within specified mass error tolerance
	No target masses specified

The status colors will be reported for each of the target masses specified on the ProMass Browser summary page and on the chromatogram summary page. On the ProMass Browser summary page the best of all status colors will be reported in the result code box. For example, if you specified multiple target masses, one of which was reported as green status, another with red status, and another with orange status, the overall result code for the analysis on the ProMass Browser summary page would be reported as green. Some examples of ProMass Browser and chromatogram summary pages are shown below:

Example ProMass Browser summary page:

summary report example:

Example chromatogram summary page with color-coded target mass reporting:

chromatogram summary example:

Important things to know about the ProMass Browser summary page:

Use the ProMass Browser button on the ProMassXcali HomePage to quickly navigate to your latest ProMass Browser summary page.
The ProMass Browser summary page is always named index.html and can be found in the promass_results directory of your aquired data directory if you used the default raw Directory Format option. Otherwise, the index.html file can be found in your base Results Directory.
The ProMass Browser summary page is always created for data files processed through the Xcalibur Sequence Setup, but not for individual spectra processed from the clipboard.
Each data file processed into a particular results directory will be represented by a single row in the ProMass Browser summary report. The ordering of the rows will be in the order that they were originally processed.
If you reprocess data from a sequence row to a particular results directory, any existing summary page will be automatically updated with the new information.
You configure options for the ProMass Browser summary page from the Reporting tab of the Build ZNova Params screen.