ABI Prism® 7900HT Sequence Detection System ... - OpenWetWare

Analyzing the Run Data
Configuring the
Analysis Options
(Optional)
6-8 Real-Time Analysis
Before analyzing the data collected from the complete absolute quantification run,
decide whether to configure the options for the software analysis. The analysis
options allow you to pre-configure the threshold and baseline settings applied to the
plate document data during the analysis. If you choose not to configure the analysis
options, the SDS software uses the default baseline range and automatically
calculates the threshold value for the run.
To configure the analysis options for the absolute quantification run:
Step Action
1 If not already open, launch the SDS software as explained on page 4-5.
2 Open the plate document file for analysis as follows:
a. From the File menu, select Open.
b. From the File Type drop-down list, select ABI PRISM SDS Single Plate (*.sds).
c. From the Look in text field, navigate to and select the plate document file.
d. Click Open.
The SDS software displays the plate document file.
3 From the Analysis menu, select Analysis Options.
The Analysis Options - Absolute Quantification dialog box appears.
4 If desired, click the Threshold text field, and type an initial threshold value to use for
the analysis of the plate document.
For more information about the threshold setting, see “Calculating Threshold
Cycles” on page A-10.
Note If no threshold is specified, the SDS software will automatically assign a
threshold value during the analysis.
5 If desired, set a default baseline for the analysis:
a. Click the Baseline Start text field, and type or dial an initial baseline to use for the
analysis of the plate document.
b. Click the Stop text field, and type or dial an stop baseline to use for the analysis
of the plate document.
Note If no baseline is specified, the SDS software will use the default baseline
range of cycles 3-15 for the analysis.
6 Set the baseline and threshold values for any remaining detectors present on the
plate as follows:
a. From the Detector drop-down list, select another detector.
b. Repeat steps 4 and 5 until the baseline and threshold values have been set for
each detector.
7 Click OK.
The software closes the dialog box and configures the analysis with new settings.