C# Class ImsInformed.Scoring.FeatureScoreUtilities

The feature score.

Datei anzeigen Open project: PNNL-Comp-Mass-Spec/IMS-Informed-Library

Public Methods

Method	Description
AddFeatureScores ( PeakScores a, PeakScores b ) : PeakScores	The sum feature scores.
AverageFeatureStatistics ( IEnumerable scoreHolders ) : PeakScores	The average feature scores.
IntensityScore ( StandardImsPeak featurePeak, double globalMaxIntensity ) : double	The intensity score.
IsotopicProfileScore ( StandardImsPeak imsPeak, DataReader reader, IImsTarget target, List isotopicPeakList, VoltageGroup voltageGroup, IsotopicScoreMethod selectedMethod, double globalMaxIntensities, double totalScans ) : double	The score feature using isotopic profile.
PeakShapeScore ( StandardImsPeak imsPeak, DataReader reader, double massToleranceInPpm, double driftTimeToleranceInMs, VoltageGroup voltageGroup, double globalMaxIntensities, int numberOfScans ) : double	The Peak shape score. Evaluating how "good" the peak looks. A good peak shape score indicates that the peak is not a result of noise or instrument errors. Mostly the feature intensity along is sufficient to exclude noise but a good shape score helps evaluating the experiment and thus the reliability of the data analysis result.
ScoreFeature ( this peak, double globalMaxIntensity, DataReader uimfReader, double massToleranceInPpm, double driftTimeToleranceInMs, VoltageGroup voltageGroup, int voltageGroupScans, IImsTarget target, IsotopicScoreMethod isotopicScoreMethod, List theoreticalIsotopicProfile ) : PeakScores	The score feature.

Private Methods

Method	Description
BhattacharyyaDistance ( List observedIsotopicPeakList, List expectedIsotopicPeakList ) : double	The bhattacharyya distance.
EuclideanAlternative ( List observedIsotopicPeakList, List expectedIsotopicPeakList ) : double	The bhattacharyya distance.
IsotopicProfileScoreAngle ( List observedIsotopicPeakList, List expectedIsotopicPeakList ) : double	The isotopic profile score angle.
IsotopicProfileScoreEuclidean ( List observedIsotopicPeakList, List expectedIsotopicPeakList ) : double	The score feature using isotopic profile.
PearsonCorrelation ( List observedIsotopicPeakList, List expectedIsotopicPeakList ) : double	The pearson correlation.

Method Details

AddFeatureScores() public static method

The sum feature scores.

public static AddFeatureScores ( PeakScores a, PeakScores b ) : PeakScores
a	PeakScores	/// The a. ///
b	PeakScores	/// The b. ///
return	PeakScores

AverageFeatureStatistics() public static method

The average feature scores.

public static AverageFeatureStatistics ( IEnumerable scoreHolders ) : PeakScores
scoreHolders	IEnumerable	/// The score holders. ///
return	PeakScores

IntensityScore() public static method

The intensity score.

public static IntensityScore ( StandardImsPeak featurePeak, double globalMaxIntensity ) : double
featurePeak	StandardImsPeak	/// The feature blob. ///
globalMaxIntensity	double	/// The global Max Intensity. ///
return	double

IsotopicProfileScore() public static method

The score feature using isotopic profile.

///

public static IsotopicProfileScore ( StandardImsPeak imsPeak, DataReader reader, IImsTarget target, List isotopicPeakList, VoltageGroup voltageGroup, IsotopicScoreMethod selectedMethod, double globalMaxIntensities, double totalScans ) : double
imsPeak	StandardImsPeak	/// The ims Peak. ///
reader	DataReader	/// The reader. ///
target	IImsTarget	/// The Target. ///
isotopicPeakList	List	/// The isotopic peak list. ///
voltageGroup	VoltageGroup	/// The voltage Group. ///
selectedMethod	IsotopicScoreMethod	/// The selected Method. ///
globalMaxIntensities	double	///
totalScans	double
return	double

PeakShapeScore() public static method

The Peak shape score. Evaluating how "good" the peak looks. A good peak shape score indicates that the peak is not a result of noise or instrument errors. Mostly the feature intensity along is sufficient to exclude noise but a good shape score helps evaluating the experiment and thus the reliability of the data analysis result.

public static PeakShapeScore ( StandardImsPeak imsPeak, DataReader reader, double massToleranceInPpm, double driftTimeToleranceInMs, VoltageGroup voltageGroup, double globalMaxIntensities, int numberOfScans ) : double
imsPeak	StandardImsPeak	/// The imsPeak. ///
reader	DataReader	/// The reader. ///
massToleranceInPpm	double	/// The mass Tolerance In Ppm. ///
driftTimeToleranceInMs	double	/// The drift Time Tolerance In Scans. ///
voltageGroup	VoltageGroup	/// The voltage group. ///
globalMaxIntensities	double	/// The global Max Intensities. ///
numberOfScans	int	/// The number Of Scans. ///
return	double

ScoreFeature() public static method

The score feature.

public static ScoreFeature ( this peak, double globalMaxIntensity, DataReader uimfReader, double massToleranceInPpm, double driftTimeToleranceInMs, VoltageGroup voltageGroup, int voltageGroupScans, IImsTarget target, IsotopicScoreMethod isotopicScoreMethod, List theoreticalIsotopicProfile ) : PeakScores
peak	this	/// The peak. ///
globalMaxIntensity	double	/// The global max intensity. ///
uimfReader	DataReader	/// The uimf reader. ///
massToleranceInPpm	double	/// The mass tolerance in ppm. ///
driftTimeToleranceInMs	double	/// The drift time tolerance in ms. ///
voltageGroup	VoltageGroup	/// The voltage group. ///
voltageGroupScans	int	/// The voltage group scans. ///
target	IImsTarget	/// The target. ///
isotopicScoreMethod	IsotopicScoreMethod	/// The isotopic score method. ///
theoreticalIsotopicProfile	List	/// The theoretical isotopic profile. ///
return	PeakScores