Identification

Protein and peptide identification classes. More...

Classes
class	CompNovoIdentification
	run with CompNovoIdentification More...
class	CompNovoIdentificationBase
	run with CompNovoIdentificationBase More...
class	CompNovoIdentificationCID
	run with CompNovoIdentificationCID More...
class	AccurateMassSearchEngine
	An algorithm to search for exact mass matches from a spectrum against a database (e.g. HMDB). More...
class	ConsensusIDAlgorithm
	Abstract base class for all ConsensusID algorithms (that calculate a consensus from multiple ID runs). More...
class	ConsensusIDAlgorithmAverage
	Calculates a consensus from multiple ID runs by averaging the search scores. More...
class	ConsensusIDAlgorithmBest
	Calculates a consensus from multiple ID runs by taking the best search score. More...
class	ConsensusIDAlgorithmIdentity
	Abstract base class for ConsensusID algorithms that compare only identical sequences. More...
class	ConsensusIDAlgorithmPEPIons
	Calculates a consensus from multiple ID runs based on PEPs and shared ions. More...
class	ConsensusIDAlgorithmPEPMatrix
	Calculates a consensus from multiple ID runs based on PEPs and sequence similarities. More...
class	ConsensusIDAlgorithmRanks
	Calculates a consensus from multiple ID runs based on the ranks of the search hits. More...
class	ConsensusIDAlgorithmSimilarity
	Abstract base class for ConsensusID algorithms that take peptide similarity into account. More...
class	FalseDiscoveryRate
	Calculates an FDR from identifications. More...
class	IDDecoyProbability
	IDDecoyProbability calculates probabilities using decoy approach. More...
class	IDRipper
	Ripping protein/peptide identification according their file origin. More...
class	PILISIdentification
	This class actually implements a complete ProteinIdentification run with PILIS. More...
class	PILISModel
	This class implements the simulation of the spectra from PILIS. More...
class	PILISNeutralLossModel
	This class implements the simulation of the spectra from PILIS. More...
class	PILISScoring
	This class actually implements the E-value based scoring of PILIS. More...

Detailed Description

Protein and peptide identification classes.