C# Class Coon.Compass.TagQuant.TagQuant

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Public Properties

Property	Type	Description
CalculatePurity	bool
DontQuantifyETD	bool
ETDQuantPosition	int
FtMassTolerance	CSMSL.Tolerance
InputFiles	List
ItMassTolerance	CSMSL.Tolerance
MS3Quant	bool
NoisebandCap	bool
OutputDirectory	string
PurityMatrices	IsobaricTagPurityCorrection>.Dictionary
PurityWindowInTh	double
RawFileDirectory	string
RawFiles	ThermoRawFile>.Dictionary
UsedTags	TagInformation>.SortedList

Public Methods

Method	Description
Run ( ) : void
TagQuant ( string outputDirectory, string rawFileDirectory, IEnumerable inputFiles, IEnumerable tags, Tolerance itTolerance, Tolerance ftTolerance, bool isMS3Quant = false, int etdQuantPosition, bool nosiebasecap = false, bool isETDQuantified = true, bool calculatePurity = false ) : System

Protected Methods

Method	Description
OnUpdateLog ( string message ) : void

Private Methods

Method	Description
BuildPurityMatrixes ( IEnumerable inputTags ) : void
DeterminePurity ( MSDataScan scan, double mz, int charge, DoubleRange isolationRange ) : double
LoadFiles ( IEnumerable filePaths, bool ms3Quant = false ) : IEnumerable
Log ( string msg ) : void
Normalize ( IEnumerable quantFiles ) : void
OnProgressUpdate ( int percent ) : void
PurityCorrect ( IEnumerable peaks, bool isDecoy ) : void
WriteLog ( ) : void
WriteOutputFiles ( IEnumerable quantFiles ) : void

Method Details

OnUpdateLog() protected method

protected OnUpdateLog ( string message ) : void
message	string
return	void

Run() public method

public Run ( ) : void
return	void

TagQuant() public method

public TagQuant ( string outputDirectory, string rawFileDirectory, IEnumerable inputFiles, IEnumerable tags, Tolerance itTolerance, Tolerance ftTolerance, bool isMS3Quant = false, int etdQuantPosition, bool nosiebasecap = false, bool isETDQuantified = true, bool calculatePurity = false ) : System
outputDirectory	string
rawFileDirectory	string
inputFiles	IEnumerable
tags	IEnumerable
itTolerance	CSMSL.Tolerance
ftTolerance	CSMSL.Tolerance
isMS3Quant	bool
etdQuantPosition	int
nosiebasecap	bool
isETDQuantified	bool
calculatePurity	bool
return	System

Property Details

CalculatePurity public_oe property

public bool CalculatePurity
return	bool

DontQuantifyETD public_oe property

public bool DontQuantifyETD
return	bool

ETDQuantPosition public_oe property

public int ETDQuantPosition
return	int

FtMassTolerance public_oe property

public Tolerance,CSMSL FtMassTolerance
return	CSMSL.Tolerance

InputFiles public_oe property

public List InputFiles
return	List

ItMassTolerance public_oe property

public Tolerance,CSMSL ItMassTolerance
return	CSMSL.Tolerance

MS3Quant public_oe property

public bool MS3Quant
return	bool

NoisebandCap public_oe property

public bool NoisebandCap
return	bool

OutputDirectory public_oe property

public string OutputDirectory
return	string

PurityMatrices public_oe property

public Dictionary PurityMatrices
return	IsobaricTagPurityCorrection>.Dictionary

PurityWindowInTh public_oe property

public double PurityWindowInTh
return	double

RawFileDirectory public_oe property

public string RawFileDirectory
return	string

RawFiles public_oe property

public Dictionary RawFiles
return	ThermoRawFile>.Dictionary

UsedTags public_oe property

public SortedList UsedTags
return	TagInformation>.SortedList