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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() const SequestInfile
getEnzymeInfo_() const SequestInfileprotected
getEnzymeInfoAsString() const SequestInfile
getEnzymeName() const SequestInfile
getEnzymeNumber() const SequestInfile
getIonCutoffPercentage() const SequestInfile
getIonSeriesWeights() const SequestInfile
getMassTypeFragment() const SequestInfile
getMassTypeParent() const SequestInfile
getMatchPeakAllowedError() const SequestInfile
getMatchPeakCount() const SequestInfile
getMatchPeakTolerance() const SequestInfile
getMaxAAPerModPerPeptide() const SequestInfile
getMaxInternalCleavageSites() const SequestInfile
getMaxModsPerPeptide() const SequestInfile
getModifications() const SequestInfile
getNeutralLossesForIons() const SequestInfile
getNormalizeXcorr() const SequestInfile
getNucleotideReadingFrame() const SequestInfile
getOutputLines() const SequestInfile
getPartialSequence() const SequestInfile
getPeakMassTolerance() const SequestInfile
getPeptideMassUnit() const SequestInfile
getPrecursorMassTolerance() const SequestInfile
getPrintDuplicateReferences() const SequestInfile
getProteinMassFilter() const SequestInfile
getRemovePrecursorNearPeaks() const SequestInfile
getResiduesInUpperCase() const SequestInfile
getSequenceHeaderFilter() const SequestInfile
getShowFragmentIons() const SequestInfile
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) const SequestInfile
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

OpenMS / TOPP release 2.0.0 Documentation generated on Thu Aug 20 2015 01:44:40 using doxygen 1.8.9.1