Inheritance diagram for SimpleSearchEngine:

Classes
class	HasInvalidPeptideLengthPredicate

Protected Member Functions
void	registerOptionsAndFlags_ ()

vector< ResidueModification >	getModifications_ (StringList modNames)

double	logfactorial (UInt x)

double	computeHyperScore (double fragment_mass_tolerance, bool fragment_mass_tolerance_unit_ppm, const MSSpectrum< Peak1D > &exp_spectrum, const MSSpectrum< RichPeak1D > &theo_spectrum)

void	preprocessSpectra_ (PeakMap &exp, double fragment_mass_tolerance, bool fragment_mass_tolerance_unit_ppm)

void	postProcessHits_ (const PeakMap &exp, const vector< vector< PeptideHit > > &peptide_hits, vector< ProteinIdentification > &protein_ids, vector< PeptideIdentification > &peptide_ids, Size top_hits)

ExitCodes	main_ (int, const char **)

Static Protected Member Functions
template<typename SpectrumType >
static void	deisotopeAndSingleChargeMSSpectrum (SpectrumType &in, Int min_charge, Int max_charge, double fragment_tolerance, bool fragment_unit_ppm, bool keep_only_deisotoped=false, Size min_isopeaks=3, Size max_isopeaks=10, bool make_single_charged=true)

Constructor & Destructor Documentation

SimpleSearchEngine ( )

inline

Member Function Documentation

double computeHyperScore	(	double	fragment_mass_tolerance,
		bool	fragment_mass_tolerance_unit_ppm,
		const MSSpectrum< Peak1D > &	exp_spectrum,
		const MSSpectrum< RichPeak1D > &	theo_spectrum
	)

inlineprotected

static void deisotopeAndSingleChargeMSSpectrum	(	SpectrumType &	in,
		Int	min_charge,
		Int	max_charge,
		double	fragment_tolerance,
		bool	fragment_unit_ppm,
		bool	keep_only_deisotoped = `false`,
		Size	min_isopeaks = `3`,
		Size	max_isopeaks = `10`,
		bool	make_single_charged = `true`
	)

inlinestaticprotected

vector<ResidueModification> getModifications_ ( StringList modNames )

inlineprotected

double logfactorial ( UInt x )

inlineprotected

inlineprotected

void postProcessHits_	(	const PeakMap &	exp,
		const vector< vector< PeptideHit > > &	peptide_hits,
		vector< ProteinIdentification > &	protein_ids,
		vector< PeptideIdentification > &	peptide_ids,
		Size	top_hits
	)

inlineprotected

void preprocessSpectra_	(	PeakMap &	exp,
		double	fragment_mass_tolerance,
		bool	fragment_mass_tolerance_unit_ppm
	)

inlineprotected

void registerOptionsAndFlags_ ( )

inlineprotected