C# Class CSMSL.Analysis.Identification.MSSearchEngine

Show file Open project: dbaileychess/CSMSL

Protected Properties

Property	Type	Description
Peptides	List

Public Methods

Method	Description
AddVariableModification ( IMass modificaiton, IAminoAcid aminoAcid ) : void
AddVariableModification ( IMass modificaiton, ModificationSites sites ) : void
AddVariableModification ( IMass modificaiton, Terminus terminus ) : void
AddVariableModification ( IMass modification, char residue ) : void
ClearVariableModifications ( ) : void
LoadPeptides ( IEnumerable peptides ) : void
Search ( IMassSpectrum massSpectrum, Peptide peptide ) : PeptideSpectralMatch
Search ( IMassSpectrum massSpectrum, Peptide peptide, FragmentTypes fragmentTypes, Tolerance productMassTolerance ) : PeptideSpectralMatch
Search ( IMassSpectrum massSpectrum, IEnumerable peptides ) : SortedMaxSizedContainer
Search ( IMassSpectrum massSpectrum, IEnumerable peptides, FragmentTypes fragmentTypes, Tolerance productMassTolerance ) : SortedMaxSizedContainer

Protected Methods

Method	Description
MSSearchEngine ( ) : System.Collections.Generic

Method Details

AddVariableModification() public method

public AddVariableModification ( IMass modificaiton, IAminoAcid aminoAcid ) : void
modificaiton	IMass
aminoAcid	IAminoAcid
return	void

AddVariableModification() public method

public AddVariableModification ( IMass modificaiton, ModificationSites sites ) : void
modificaiton	IMass
sites	ModificationSites
return	void

AddVariableModification() public method

public AddVariableModification ( IMass modificaiton, Terminus terminus ) : void
modificaiton	IMass
terminus	Terminus
return	void

AddVariableModification() public method

public AddVariableModification ( IMass modification, char residue ) : void
modification	IMass
residue	char
return	void

ClearVariableModifications() public method

public ClearVariableModifications ( ) : void
return	void

LoadPeptides() public method

public LoadPeptides ( IEnumerable peptides ) : void
peptides	IEnumerable
return	void

MSSearchEngine() protected method

protected MSSearchEngine ( ) : System.Collections.Generic
return	System.Collections.Generic

Search() public method

public Search ( IMassSpectrum massSpectrum, Peptide peptide ) : PeptideSpectralMatch
massSpectrum	IMassSpectrum
peptide	Peptide
return	PeptideSpectralMatch

Search() public abstract method

public abstract Search ( IMassSpectrum massSpectrum, Peptide peptide, FragmentTypes fragmentTypes, Tolerance productMassTolerance ) : PeptideSpectralMatch
massSpectrum	IMassSpectrum
peptide	Peptide
fragmentTypes	FragmentTypes
productMassTolerance	Tolerance
return	PeptideSpectralMatch

Search() public method

public Search ( IMassSpectrum massSpectrum, IEnumerable peptides ) : SortedMaxSizedContainer
massSpectrum	IMassSpectrum
peptides	IEnumerable
return	SortedMaxSizedContainer

Search() public method

public Search ( IMassSpectrum massSpectrum, IEnumerable peptides, FragmentTypes fragmentTypes, Tolerance productMassTolerance ) : SortedMaxSizedContainer
massSpectrum	IMassSpectrum
peptides	IEnumerable
fragmentTypes	FragmentTypes
productMassTolerance	Tolerance
return	SortedMaxSizedContainer

Property Details

Peptides protected property

protected List Peptides
return	List