OpenMS  2.8.0
SequestInfile Member List

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

addEnzymeInfo(std::vector< String > &enzyme_info)SequestInfile
database_SequestInfileprotected
enzyme_info_SequestInfileprotected
enzyme_number_SequestInfileprotected
getDatabase() constSequestInfile
getEnzymeInfo_() constSequestInfileprotected
getEnzymeInfoAsString() constSequestInfile
getEnzymeName() constSequestInfile
getEnzymeNumber() constSequestInfile
getIonCutoffPercentage() constSequestInfile
getIonSeriesWeights() constSequestInfile
getMassTypeFragment() constSequestInfile
getMassTypeParent() constSequestInfile
getMatchPeakAllowedError() constSequestInfile
getMatchPeakCount() constSequestInfile
getMatchPeakTolerance() constSequestInfile
getMaxAAPerModPerPeptide() constSequestInfile
getMaxInternalCleavageSites() constSequestInfile
getMaxModsPerPeptide() constSequestInfile
getModifications() constSequestInfile
getNeutralLossesForIons() constSequestInfile
getNormalizeXcorr() constSequestInfile
getNucleotideReadingFrame() constSequestInfile
getOutputLines() constSequestInfile
getPartialSequence() constSequestInfile
getPeakMassTolerance() constSequestInfile
getPeptideMassUnit() constSequestInfile
getPrecursorMassTolerance() constSequestInfile
getPrintDuplicateReferences() constSequestInfile
getProteinMassFilter() constSequestInfile
getRemovePrecursorNearPeaks() constSequestInfile
getResiduesInUpperCase() constSequestInfile
getSequenceHeaderFilter() constSequestInfile
getShowFragmentIons() constSequestInfile
handlePTMs(const String &modification_line, const String &modifications_filename, const bool monoisotopic)SequestInfile
ion_cutoff_percentage_SequestInfileprotected
ion_series_weights_SequestInfileprotected
mass_type_fragment_SequestInfileprotected
mass_type_parent_SequestInfileprotected
match_peak_allowed_error_SequestInfileprotected
match_peak_count_SequestInfileprotected
match_peak_tolerance_SequestInfileprotected
max_AA_per_mod_per_peptide_SequestInfileprotected
max_internal_cleavage_sites_SequestInfileprotected
max_mods_per_peptide_SequestInfileprotected
neutral_losses_for_ions_SequestInfileprotected
normalize_xcorr_SequestInfileprotected
nucleotide_reading_frame_SequestInfileprotected
operator=(const SequestInfile &sequest_infile)SequestInfile
operator==(const SequestInfile &sequest_infile) constSequestInfile
output_lines_SequestInfileprotected
partial_sequence_SequestInfileprotected
peak_mass_tolerance_SequestInfileprotected
peptide_mass_unit_SequestInfileprotected
precursor_mass_tolerance_SequestInfileprotected
print_duplicate_references_SequestInfileprotected
protein_mass_filter_SequestInfileprotected
PTMname_residues_mass_type_SequestInfileprotected
remove_precursor_near_peaks_SequestInfileprotected
residues_in_upper_case_SequestInfileprotected
sequence_header_filter_SequestInfileprotected
SequestInfile()SequestInfile
SequestInfile(const SequestInfile &sequest_infile)SequestInfile
setDatabase(const String &database)SequestInfile
setEnzyme(String enzyme_name)SequestInfile
setIonCutoffPercentage(float ion_cutoff_percentage)SequestInfile
setIonSeriesWeights(const String &ion_series_weights)SequestInfile
setMassTypeFragment(bool mass_type_fragment)SequestInfile
setMassTypeParent(bool mass_type_parent)SequestInfile
setMatchPeakAllowedError(Size match_peak_allowed_error)SequestInfile
setMatchPeakCount(Size match_peak_count)SequestInfile
setMatchPeakTolerance(float match_peak_tolerance)SequestInfile
setMaxAAPerModPerPeptide(Size max_aa_per_mod_per_peptide)SequestInfile
setMaxInternalCleavageSites(Size max_internal_cleavage_sites)SequestInfile
setMaxModsPerPeptide(Size max_mods_per_peptide)SequestInfile
setNeutralLossesForIons(const String &neutral_losses_for_ions)SequestInfile
setNormalizeXcorr(bool normalize_xcorr)SequestInfile
setNucleotideReadingFrame(Size nucleotide_reading_frame)SequestInfile
setOutputLines(Size output_lines)SequestInfile
setPartialSequence(const String &partial_sequence)SequestInfile
setPeakMassTolerance(float peak_mass_tolerance)SequestInfile
setPeptideMassUnit(Size peptide_mass_unit)SequestInfile
setPrecursorMassTolerance(float precursor_mass_tolerance)SequestInfile
setPrintDuplicateReferences(bool print_duplicate_references)SequestInfile
setProteinMassFilter(const String &protein_mass_filter)SequestInfile
setRemovePrecursorNearPeaks(bool remove_precursor_near_peaks)SequestInfile
setResiduesInUpperCase(bool residues_in_upper_case)SequestInfile
setSequenceHeaderFilter(const String &sequence_header_filter)SequestInfile
setShowFragmentIons(bool show_fragments)SequestInfile
setStandardEnzymeInfo_()SequestInfileprotected
show_fragment_ions_SequestInfileprotected
snd_database_SequestInfileprotected
store(const String &filename)SequestInfile
~SequestInfile()SequestInfilevirtual