PSProteinInference Class Reference

This class implements protein inference for the precursor ion selection strategies. More...

#include <OpenMS/ANALYSIS/TARGETED/PSProteinInference.h>

Public Member Functions
	PSProteinInference ()
virtual	~PSProteinInference ()
Size	findMinimalProteinList (const std::vector< PeptideIdentification > &peptide_ids)
void	calculateProteinProbabilities (const std::vector< PeptideIdentification > &ids)
double	getProteinProbability (const String &acc)
bool	isProteinInMinimalList (const String &acc)
Int	getNumberOfProtIds (double protein_id_threshold)
Int	getNumberOfProtIdsPeptideRule (Int min_peptides, std::map< String, std::set< String > > &prot_id_counter)
void	setSolver (LPWrapper::SOLVER solver)
LPWrapper::SOLVER	getSolver ()

Private Attributes
std::vector< String >	minimal_protein_list_accessions_
std::vector< String >	accessions_
std::vector< double >	probabilities_
LPWrapper::SOLVER	solver_

Detailed Description

This class implements protein inference for the precursor ion selection strategies.

Constructor & Destructor Documentation

PSProteinInference()

PSProteinInference

(

)

~PSProteinInference()

virtual ~PSProteinInference ( )

virtual

Member Function Documentation

calculateProteinProbabilities()

void calculateProteinProbabilities

(

const std::vector< PeptideIdentification > &

ids

)

findMinimalProteinList()

Size findMinimalProteinList

(

const std::vector< PeptideIdentification > &

peptide_ids

)

getNumberOfProtIds()

Int getNumberOfProtIds

(

double

protein_id_threshold

)

getNumberOfProtIdsPeptideRule()

Int getNumberOfProtIdsPeptideRule	(	Int	min_peptides,
		std::map< String, std::set< String > > &	prot_id_counter
	)

getProteinProbability()

double getProteinProbability

(

const String &

acc

)

getSolver()

LPWrapper::SOLVER getSolver ( )

inline

isProteinInMinimalList()

bool isProteinInMinimalList

(

const String &

acc

)

setSolver()

void setSolver ( LPWrapper::SOLVER  solver )

inline

Member Data Documentation

accessions_

std::vector<String> accessions_

private

minimal_protein_list_accessions_

std::vector<String> minimal_protein_list_accessions_

private

probabilities_

std::vector<double> probabilities_

private

solver_

LPWrapper::SOLVER solver_

private