Use this to save results from normalizing two channel microarray data. These results are saved when an analysis is run and must be specified before running an analysis.
- After selecting the appropriate boxes, type names for the data structures into the corresponding In fields.
The table below indicates the type of structures formed for each item.
|Corrected log-ratio||Variate||The log-ratios corrected for the fitted terms/effects.|
|Standardized log-ratios||Variate||The standardized corrected log-ratios = corrected log-ratios/smoothed standard deviations.|
|LR smoothed standard deviation||Variate||The smoothed standard deviations of the corrected log-ratios.|
|Corrected log (base 2) red values||Variate||The log2 red corrected for the fitted terms/effects. This is given by:
CALC cLogRed = Intensity + cLogRatio/2
|Corrected log (base 2) green values||Variate||The log2 green corrected for the fitted terms/effects. This is given by:
CALC cLogGreen = Intensity – cLogRatio/2
|Pin effects||Table||The fitted pin effects as a table indexed by slide and pin.|
|Row effects||Table||The fitted row effects as a table indexed by slide and row.|
|Column effects||Table||The fitted column effects as a table indexed by slide and column.|
|Intensity effects||Variate||The fitted intensity effects for each spot.|
Display in spreadsheet
When selected, the saved results will be displayed in spreadsheets. The saved table results will also be displayed within new spreadsheet windows, and the variate results will be added to the originating spreadsheet for the log-ratios, if it is currently open in Genstat, otherwise to a new spreadsheet.
|Clear||Clear all fields and list boxes.|
|Help||Open the Help topic for this dialog.|
- Normalize Two Channel Microarray Data menu
- Normalize Two Channel Microarray Data Options
- MNORMALIZE procedure