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OpenMS
SequestInfile
SequestInfile Member List
This is the complete list of members for
SequestInfile
, including all inherited members.
addEnzymeInfo
(std::vector< String > &enzyme_info)
SequestInfile
database_
SequestInfile
protected
enzyme_info_
SequestInfile
protected
enzyme_number_
SequestInfile
protected
getDatabase
() const
SequestInfile
getEnzymeInfo_
() const
SequestInfile
protected
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_
SequestInfile
protected
ion_series_weights_
SequestInfile
protected
mass_type_fragment_
SequestInfile
protected
mass_type_parent_
SequestInfile
protected
match_peak_allowed_error_
SequestInfile
protected
match_peak_count_
SequestInfile
protected
match_peak_tolerance_
SequestInfile
protected
max_AA_per_mod_per_peptide_
SequestInfile
protected
max_internal_cleavage_sites_
SequestInfile
protected
max_mods_per_peptide_
SequestInfile
protected
neutral_losses_for_ions_
SequestInfile
protected
normalize_xcorr_
SequestInfile
protected
nucleotide_reading_frame_
SequestInfile
protected
operator=
(const SequestInfile &sequest_infile)
SequestInfile
operator==
(const SequestInfile &sequest_infile) const
SequestInfile
output_lines_
SequestInfile
protected
partial_sequence_
SequestInfile
protected
peak_mass_tolerance_
SequestInfile
protected
peptide_mass_unit_
SequestInfile
protected
precursor_mass_tolerance_
SequestInfile
protected
print_duplicate_references_
SequestInfile
protected
protein_mass_filter_
SequestInfile
protected
PTMname_residues_mass_type_
SequestInfile
protected
remove_precursor_near_peaks_
SequestInfile
protected
residues_in_upper_case_
SequestInfile
protected
sequence_header_filter_
SequestInfile
protected
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_
()
SequestInfile
protected
show_fragment_ions_
SequestInfile
protected
snd_database_
SequestInfile
protected
store
(const String &filename)
SequestInfile
~SequestInfile
()
SequestInfile
virtual
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