DRAFT
September 1, 2004 11:39 am, CH_Real-Time.fm
Analyzing the Study
Applied Biosystems 7900HT Fast Real-Time PCR System and SDS Enterprise Database User Guide 6-29
Specifying the Analysis Settings
Specifying the
Settings for the
Analysis
1. Click (or select Analysis > Analysis Settings).
2. In the Detector drop-down list, select:
• detector name – To set the Analysis Settings for a specific detector.
• All Detectors – To set the Analysis Settings for a all detectors
simultaneously.
3. In the Analysis Settings dialog box, configure the method (automatic or manual)
that the software will use to determine the baseline and threshold values for the
selected detectors:
To determine the baseline and threshold values:
Automatically
Select the Automatic Ct option button. (See page 6-18 for information on the
Automatic Ct algorithm.)
If you choose to use the Automatic C
T
algorithm, verify that the baseline and
threshold were called correctly for each detector configured for AutoCalling
(following the procedure on page 6-46).
Manually
Do the following:
a. Select the Manual Ct option button.
b. In the Threshold field, enter a threshold value to apply to the selected
detector(s) or leave the field empty and set the threshold value manually as
explained on page 6-46.
c. Select one of the following:
• Automatic Baseline, to have the software calculate a baseline for the
selected detector(s).
• Manual Baseline, then enter Start and End cycle values to apply to the
selected detector(s).
• Manual Baseline, and leave the Start and End cycles fields empty. (You
will need to set the values manually as explained on page 6-46.)
4. If necessary, repeat steps 2 through 3 for any additional detectors.
IMPORTANT!
The threshold and baseline values set in step 3 are detector specific,
and must be set for each individual detector used on in the plate document.
5. If evaluating groups of two or more replicates per sample, select or deselect the
Automatic Outlier Removal option.
6. If desired, select the Omit Samples Whose ∆C
T
<= check box, then enter a
value in the field. See “Replicate and Outlier Removal for Study Settings” on
page 6-27 for more information.
7. In the Calibrator Sample drop-down list, select the sample that you want to use
as the calibrator for your study.