More detailed help file descriptions
<p>
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.
+ chromatographic feature for each MS1 precursor ion with a corresponding MSn scan.
+ </p><p>
+ The feature list of precursor signals is constructed using the specified mass and
+ retention time tolerances. For each detected MSn-containing precursor signal, a targeted chromatogram
+ in the retention time range is built using all MS1 basepeaks within the mass range.
</p><p>
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.
<h4>Method parameters</h4>
<dl>
<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>
+ <dd>The MS level for precursor feature building. All fragment scans corresponding to this MS level
+ are detected and traced back to their MS1 precursor ion origin. <i>Do not set MS Level in the
+ Scan Selection field - this will cause the algorithm to behave improperly.</i></dd>
<dt>m/z Tolerance</dt>
- <dd>Precursor ion (MS1) mass tolerance for feature building.</dd>
+ <dd>Precursor ion (MS1) mass tolerance for feature building. All MS1 base peaks within this mass range will be
+ use to build a targeted chromatogram feature.</dd>
<dt>Retention time tolerance</dt>
- <dd>Precursor ion (MS1) retention time tolerance for feature building.</dd>
+ <dd>Precursor ion (MS1) retention time tolerance for feature building. All MS1 base peaks with this retention time range
+ will be used to build a targeted chromatogram feature.</dd>
</dl>
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