Normalize Two Channel Microarray Date Store
See Also
This dialog allows you to save results from normalizing two channel microarray data. These results are saved when an analysis is run and should be specified before running an analysis.

Save

After checking the appropriate boxes, you need to type names for the data structures into the corresponding fields. The table below indicates the type of structures formed for each item.
Corrected Log-ratiovariate The log-ratios corrected for the fitted terms/effects.
Standardized Log-ratiosvariate The standardized corrected log ratios = corrected log-ratios/smoothed standard deviations.
LR Smoothed Standard Deviationvariate The smoothed standard deviations of the corrected log ratios.
Corrected Log2 Red Valuesvariate The log2 red corrected for the fitted terms/effects. This is given by:
CALC cLogRed = Intensity + cLogRatio/2
Corrected Log2 Green Valuesvariate The log2 green corrected for the fitted terms/effects. This is given by:
CALC cLogGreen = Intensity - cLogRatio/2
Pin Effectstable The fitted pin effects as a table indexed by slide and pin.
Row Effectstable The fitted row effects as a table indexed by slide and row.
Column Effectstable The fitted column effects as a table indexed by slide and column.
Intensity Effectsvariate 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.

Action Buttons

OKSave the store settings and close the dialog.
CancelClose the dialog without making any changes.

See Also