Software, Version 2.1 Owner's manual

Section 6 Data Analysis Module
- 105 -
Details of the Inter-run Calibration calculations can be accessed by clicking the Inter-run
Calibration button. The resulting Inter-run Calibration window (Figure 6.61) will display the
comparative fluorophore calculations per gene (pair-wise comparisons).
• You can choose to view the inter-run calibrator calculations for different genes in your
assay by selecting a Gene Name from the Select Gene drop-down menu.
• You can choose to view the calculations resulting from different pair-wise comparisons by
clicking on the desired tab displayed below the spreadsheet.
Inter-run Calibration Errors
When opd files are merged into a Gene Study that does not meet the above criteria, a warning
message will be displayed which states that the genes do not contain common samples across all
data sets (Figure 6.62). The warning message will specifically list the genes that are in violation.
By clicking the warning message OK button, the analysis will proceed without any inter-run
calibrators.
Clicking on the Inter-run Calibration button when there are no calibrators assigned will display a
message box which states that inter-run calibrators are not available. Proceeding without inter-
run calibrators may cause inaccurate representation of the data. To correct this problem change
the Gene and/or Condition Names in the plate interface so that identical Gene and Condition
Names are used across all data sets of the Gene Study. Use the Gene Name and Condition Name
drop down menus to select the appropriate Gene and Condition Names or directly input the
correct Gene and Condition Names. To change a large number of Gene and Condition well names
across several plates use the Copy and Paste command from the right mouse button menu.
Fig. 6.62. No Inter-Run Calibrator Error.
6.11 Post-Run Plate Editing
The Post-Run Edit Plate window allows you to edit the plate setup of a data file after an
experiment has been performed. This feature allows you to make corrections for incorrect sample
type, identifiers/conditions, probe/primer names, units, or standard concentration assignments
and to add notes about the experiment.
You may not add or remove fluorophores from wells in post-run plate editing, nor may you delete
a well from the plate setup by removing both its sample type and fluorophore assignments. (Use
Analyze Wells to remove undesired wells from the analysis.) After editing the plate, you can
reanalyze the experimental data with the new plate setup.
NOTE: You can always restore the original plate setup definitions by clicking Restore Original
Plate.