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Chapter 3 Peak Detection and Labeling
3-22 Applied Biosystems
3
Basic Settings
(spectrum data
only)
Table 3-2 describes the parameters in the Basic Settings tab
of the Spectrum Peak Detection Setup dialog box (see
Figure 3-4 on page 3-14).
Default peak detection values are listed in Section 3.7, Default
Peak Detection Settings.
Table 3-2 Basic Settings Tab Parameters (Spectrum Data Only)
Parameter Description
Global Thresholds
%Base Peak
Intensity
NOTE: This
parameter was
previously named
Peak Threshold%
and Base Peak
Relative%.
Specifies a percentage of the base peak intensity as the
threshold value.
To be detected, peaks must be above this threshold and
above the %Max Peak Area value.
If you override Global Thresholds by selecting Use Advanced
Settings (described on page 3-23), the software ignores
Global Thresholds and uses the %Base Peak Intensity,
%Max Peak Area, Minimum Area, and Minimum Intensity
thresholds set on the Advanced tab (described on page 3-28)
to detect peaks for the selected detection range.
NOTE: If you are examining Voyager data that contains a
Low Mass Gate spike, the software may identify the Low
Mass Gate spike as the Base Peak. Truncate the data as
described in Section 5.9, Truncating a Spectrum, to eliminate
the Low Mass Gate spike and correctly identify the Base
Peak.
Hint: For most Voyager applications, leave this parameter
set at 0 and adjust the %Max Peak Area.
Continued