Affymetrix


		IGDACProbePair

OVERVIEW

The IGDACProbePair interface provides access to probe pair data associated with an expression probe set.

Probe data from a CDF file only includes the X/Y coordinate, ProbeSetNumber and ProbePairNumber values. Other values such as intensity data are not available when the object is from the IGDACCDFFile object.

Intensity data from a CHP file are stored in scaled and normalized format. That is the intensity values from the CEL file are multiplied by the scale factor (SF) and the normalization factor (NF). This applies to the intensity values only, the standard deviation value is not scaled.

COM ATTRIBUTES

Attribute	Type/Supported
Threading model	Both
Interface	Dual
Aggregation	No
ISupportErrorInfo	Yes
Connection Points	No
Free Threading Marshaler	No

PROPERTIES

ProbeSetNumber

ID	1
Description	The expression probe set number that the probe pair belongs to.
Type	long
Access	Read-only
Remarks	It returns LONG_MAX if the probe pair has not been initialized and set.

ProbePairNumber

ID	2
Description	An index of the probe pair within the probe set.
Type	long
Access	Read-only
Remarks	It returns LONG_MAX if the probe pair has not been initialized and set.

UseProbePair

ID	3
Description	A flag indicating if the probe pair how the probe pair was used in the analysis.
Type	GDACFILES_PROBEPAIR_USAGE_TYPE
Access	Read-only
Remarks	It returns USE_PROBEPAIR_USAGE_TYPE if the probe pair has not been initialized and set.

Background

ID	4
Description	The background value calculated by the expression algorithm for the probe pair.
Type	float
Access	Read-only
Remarks	It returns FLT_MAX if the probe pair has not been initialized and set.

PMPosX

ID	5
Description	The x-coordinate of the perfect match probe.
Type	long
Access	Read-only
Remarks	It returns LONG_MAX if the probe pair has not been initialized and set.

PMPosY

ID	6
Description	The y-coordinate of the perfect match probe.
Type	long
Access	Read-only
Remarks	It returns LONG_MAX if the probe pair has not been initialized and set.

PMIntensity

ID	7
Description	The intensity value of the perfect match probe.
Type	float
Access	Read-only
Remarks	It returns FLT_MAX if the probe pair has not been initialized and set.

PMStdDev

ID	8
Description	The standard deviation value of the perfect match probe.
Type	float
Access	Read-only
Remarks	It returns FLT_MAX if the probe pair has not been initialized and set.

PMPixels

ID	9
Description	The number of pixels value of the perfect match probe.
Type	long
Access	Read-only
Remarks	It returns LONG_MAX if the probe pair has not been initialized and set.

PMOutlier

ID	10
Description	A flag indicating if the perfect match probe was called an "outlier" by the MAS software.
Type	BOOL
Access	Read-only
Remarks	It returns FALSE if the probe pair has not been initialized and set.

PMMasked

ID	11
Description	A flag indicating if the perfect match probe was "masked" by the user.
Type	BOOL
Access	Read-only
Remarks	It returns FALSE if the probe pair has not been initialized and set.

MMPosX

ID	12
Description	The x-coordinate of the mismatch probe.
Type	long
Access	Read-only
Remarks	It returns LONG_MAX if the probe pair has not been initialized and set.

MMPosY

ID	13
Description	The y-coordinate of the mismatch probe.
Type	long
Access	Read-only
Remarks	It returns LONG_MAX if the probe pair has not been initialized and set.

MMIntensity

ID	14
Description	The intensity value of the mismatch probe.
Type	float
Access	Read-only
Remarks	It returns FLT_MAX if the probe pair has not been initialized and set.

MMStdDev

ID	15
Description	The standard deviation value of the mismatch probe.
Type	float
Access	Read-only
Remarks	It returns FLT_MAX if the probe pair has not been initialized and set.

MMPixels

ID	16
Description	The number of pixels value of the mismatch probe.
Type	long
Access	Read-only
Remarks	It returns LONG_MAX if the probe pair has not been initialized and set.

MMOutlier

ID	17
Description	A flag indicating if the mismatch probe was called an "outlier" by the MAS software.
Type	BOOL
Access	Read-only
Remarks	It returns FALSE if the probe pair has not been initialized and set.

MMMasked

ID	18
Description	A flag indicating if the mismatch probe was "masked" by the user.
Type	BOOL
Access	Read-only
Remarks	It returns FALSE if the probe pair has not been initialized and set.