OpenMS
TheoreticalSpectrumGenerator Member List

This is the complete list of members for TheoreticalSpectrumGenerator, including all inherited members.

a_intensity_TheoreticalSpectrumGeneratorprotected
add_a_ions_TheoreticalSpectrumGeneratorprotected
add_abundant_immonium_ions_TheoreticalSpectrumGeneratorprotected
add_all_precursor_charges_TheoreticalSpectrumGeneratorprotected
add_b_ions_TheoreticalSpectrumGeneratorprotected
add_c_ions_TheoreticalSpectrumGeneratorprotected
add_first_prefix_ion_TheoreticalSpectrumGeneratorprotected
add_isotopes_TheoreticalSpectrumGeneratorprotected
add_losses_TheoreticalSpectrumGeneratorprotected
add_metainfo_TheoreticalSpectrumGeneratorprotected
add_precursor_peaks_TheoreticalSpectrumGeneratorprotected
add_x_ions_TheoreticalSpectrumGeneratorprotected
add_y_ions_TheoreticalSpectrumGeneratorprotected
add_z_ions_TheoreticalSpectrumGeneratorprotected
addAbundantImmoniumIons_(PeakSpectrum &spec, const AASequence &peptide, DataArrays::StringDataArray &ion_names, DataArrays::IntegerDataArray &charges) constTheoreticalSpectrumGeneratorprotected
addIsotopeCluster_(PeakSpectrum &spectrum, const AASequence &ion, DataArrays::StringDataArray &ion_names, DataArrays::IntegerDataArray &charges, const Residue::ResidueType res_type, Int charge, double intensity) constTheoreticalSpectrumGeneratorprotected
addLosses_(PeakSpectrum &spectrum, const AASequence &ion, DataArrays::StringDataArray &ion_names, DataArrays::IntegerDataArray &charges, double intensity, const Residue::ResidueType res_type, int charge) constTheoreticalSpectrumGeneratorprotected
addLossesFaster_(PeakSpectrum &spectrum, double mz, const std::set< EmpiricalFormula > &f_losses, int ion_ordinal, DataArrays::StringDataArray &ion_names, DataArrays::IntegerDataArray &charges, const std::map< EmpiricalFormula, String > &formula_str_cache, double intensity, const Residue::ResidueType res_type, bool add_metainfo, int charge) constTheoreticalSpectrumGeneratorprotected
addPeaks_(PeakSpectrum &spectrum, const AASequence &peptide, DataArrays::StringDataArray &ion_names, DataArrays::IntegerDataArray &charges, MSSpectrum::Chunks &chunks, const Residue::ResidueType res_type, Int charge=1) constTheoreticalSpectrumGeneratorprotectedvirtual
addPrecursorPeaks_(PeakSpectrum &spec, const AASequence &peptide, DataArrays::StringDataArray &ion_names, DataArrays::IntegerDataArray &charges, Int charge=1) constTheoreticalSpectrumGeneratorprotectedvirtual
b_intensity_TheoreticalSpectrumGeneratorprotected
c_intensity_TheoreticalSpectrumGeneratorprotected
check_defaults_DefaultParamHandlerprotected
DefaultParamHandler(const String &name)DefaultParamHandler
DefaultParamHandler(const DefaultParamHandler &rhs)DefaultParamHandler
DefaultParamHandler()DefaultParamHandlerprivate
defaults_DefaultParamHandlerprotected
defaultsToParam_()DefaultParamHandlerprotected
error_name_DefaultParamHandlerprotected
generateSpectrum(const Precursor::ActivationMethod &fm, const AASequence &seq, int precursor_charge)TheoreticalSpectrumGeneratorstatic
getDefaults() constDefaultParamHandler
getName() constDefaultParamHandler
getParameters() constDefaultParamHandler
getSpectrum(PeakSpectrum &spec, const AASequence &peptide, Int min_charge, Int max_charge, Int precursor_charge=0) constTheoreticalSpectrumGeneratorvirtual
getSubsections() constDefaultParamHandler
isotope_model_TheoreticalSpectrumGeneratorprotected
max_isotope_TheoreticalSpectrumGeneratorprotected
max_isotope_probability_TheoreticalSpectrumGeneratorprotected
operator=(const TheoreticalSpectrumGenerator &tsg)TheoreticalSpectrumGenerator
OpenMS::DefaultParamHandler::operator=(const DefaultParamHandler &rhs)DefaultParamHandler
operator==(const DefaultParamHandler &rhs) constDefaultParamHandlervirtual
param_DefaultParamHandlerprotected
pre_int_TheoreticalSpectrumGeneratorprotected
pre_int_H2O_TheoreticalSpectrumGeneratorprotected
pre_int_NH3_TheoreticalSpectrumGeneratorprotected
rel_loss_intensity_TheoreticalSpectrumGeneratorprotected
residueTypeToIonLetter_(const Residue::ResidueType res_type)TheoreticalSpectrumGeneratorprotectedstatic
setName(const String &name)DefaultParamHandler
setParameters(const Param &param)DefaultParamHandler
sort_by_position_TheoreticalSpectrumGeneratorprotected
subsections_DefaultParamHandlerprotected
TheoreticalSpectrumGenerator()TheoreticalSpectrumGenerator
TheoreticalSpectrumGenerator(const TheoreticalSpectrumGenerator &source)TheoreticalSpectrumGenerator
updateMembers_() overrideTheoreticalSpectrumGeneratorvirtual
warn_empty_defaults_DefaultParamHandlerprotected
writeParametersToMetaValues(const Param &write_this, MetaInfoInterface &write_here, const String &key_prefix="")DefaultParamHandlerstatic
x_intensity_TheoreticalSpectrumGeneratorprotected
y_intensity_TheoreticalSpectrumGeneratorprotected
z_intensity_TheoreticalSpectrumGeneratorprotected
~DefaultParamHandler()DefaultParamHandlervirtual
~TheoreticalSpectrumGenerator() overrideTheoreticalSpectrumGenerator