MAS5Norm


Input
CDF file   The name of the CDF file for experiment set.
CEL directory   The name of the directory where all *.cel files can be found.
Experiment list file   File with experiment list and their description included into calculation.
Output
Result  File with the resulting gene expression data in SelTag format.
Options
Signal Only   If this flag set on, only signal values will be at the output. Otherwise, detection and detection p-values will be reported also.
Alpha 1   Alpha 1 parameter for MAS 5.0 algorithm (MAS5.0 default is 0.04).
Alpha 2   Alpha 2 parameter for MAS 5.0 algorithm (MAS5.0 default is 0.06).
Background floor   The percent of lowest intencity probes to be considered as background (MAS 5.0 default=2).
Zone number   Number of zones (K parameter) in background noise estimation. Default value for MAS 5.0 is 16.
Background smooth   The background weight smooth parameter (MAS 5.0 default=100).
Target signal   Target value for signal scaling (MAS 5.0 default =500).
Tau   Tau parameter (MAS5.0 default is 0.015)