C# Class Coon.Compass.Lotor.PSM

Show file Open project: dbaileychess/Compass Class Usage Examples

Public Properties

Property	Type	Description
BasePeptide	Peptide
BestSiteDeterminingFragments	].int[
Charge	int
Filename	string
LocalizationResult	].double[
NumSiteDeterminingFragments	].int[
PeptideIsoforms	HashSet
ScanNumber	int
SecondBestSiteDeterminingFragments	].int[
StartResidue	int
VariabledModifications	List

Public Methods

Method	Description
Calc ( double pvalue ) : ].double[
GenerateIsoforms ( bool ignoreCTerminalMods = false ) : int
MatchIsofroms ( FragmentTypes type, Tolerance tolerance, double cutoffThreshold, bool phopshoNeutralLoss ) : void
PSM ( int scannumber, string rawfileName ) : System
SetRawFile ( MSDataFile dataFile ) : void

Private Methods

Method	Description
GetSiteDeterminingFragments ( PeptideIsoform pep1, PeptideIsoform pep2 ) : IEnumerable

Method Details

Calc() public method

public Calc ( double pvalue ) : ].double[
pvalue	double
return	].double[

GenerateIsoforms() public method

public GenerateIsoforms ( bool ignoreCTerminalMods = false ) : int
ignoreCTerminalMods	bool
return	int

MatchIsofroms() public method

public MatchIsofroms ( FragmentTypes type, Tolerance tolerance, double cutoffThreshold, bool phopshoNeutralLoss ) : void
type	FragmentTypes
tolerance	CSMSL.Tolerance
cutoffThreshold	double
phopshoNeutralLoss	bool
return	void

PSM() public method

public PSM ( int scannumber, string rawfileName ) : System
scannumber	int
rawfileName	string
return	System

SetRawFile() public method

public SetRawFile ( MSDataFile dataFile ) : void
dataFile	MSDataFile
return	void

Property Details

BasePeptide public property

public Peptide BasePeptide
return	Peptide

BestSiteDeterminingFragments public property

public int[,] BestSiteDeterminingFragments
return	].int[

Charge public property

public int Charge
return	int

Filename public property

public string Filename
return	string

LocalizationResult public property

public double[,] LocalizationResult
return	].double[

NumSiteDeterminingFragments public property

public int[,] NumSiteDeterminingFragments
return	].int[

PeptideIsoforms public property

public HashSet PeptideIsoforms
return	HashSet

ScanNumber public property

public int ScanNumber
return	int

SecondBestSiteDeterminingFragments public property

public int[,] SecondBestSiteDeterminingFragments
return	].int[

StartResidue public property

public int StartResidue
return	int

VariabledModifications public property

public List VariabledModifications
return	List