Help file update
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- <title>Peak detection - MS/MS peak picker</title>
+ <title>Peak detection - MSn feature list builder</title>
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-<h1>MS/MS peak picker</h1>
+ <h1>MSn feature list builder</h1>
<h2>Description</h2>
<p>
-The MS/MS peak picker is a module for detection of peaks which has a MS/MS (MS2).
-Its purpose is to look through the whole raw data, looking for MS2 scans and try to make a list of
-chromatographic peaks which has fragmentation scan (MS2).
+ The MSn feature list builder detects MS1 precursor signals which possess an MSn scan.
+ The modules scans the raw data looking for MSn scans and builds a
+ chromatographic feature using the specified m/z and retention time ranges for each
+ precursor ion with a corresponding MSn scan.
</p><p>
-First look for each MS2 scan on the selected file, obtains information of his parent scan and if a base peak ion, in the a specific range is found,
-a simple chromatographic peak is formed. The verification of a base peak ion helps to avoid cases when the fragmentation (MS2) scan is coming from
-a random event. Each one of the detected peaks contains only one scan, after this detection is possible to use another tool like Peak detection - Peak extender.
+ If more than one peak is detected in the range or more precise peak integration
+ is required, the feature list may be deconvoluted via the <b>Chromatogram Deconvolution</b> tool.
</p>
<h4>Method parameters</h4>
<dl>
- <dt>m/z window</dt>
- <dd>This is the m/z range (window) where the search of a base peak ion in the parent scan is done.</dd>
+ <dt>MS level</dt>
+ <dd>The MS level for precursor feature building. <i>Do not set MS Level in the Scan Selection field!</i></dd>
+ <dt>m/z Tolerance</dt>
+ <dd>Precursor ion (MS1) mass tolerance for feature building.</dd>
+ <dt>Retention time tolerance</dt>
+ <dd>Precursor ion (MS1) retention time tolerance for feature building.</dd>
</dl>
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