NuXLParameterParsing Struct Reference

#include <OpenMS/ANALYSIS/NUXL/NuXLParameterParsing.h>

Public Types
using	NucleotideToFragmentAdductMap = std::map< char, std::set< NuXLFragmentAdductDefinition > >
using	PrecursorsToMS2Adducts = std::map< std::string, MS2AdductsOfSinglePrecursorAdduct >

Static Public Member Functions
static std::vector< ResidueModification >	getModifications (StringList modNames)
	Query ResidueModifications (given as strings) from ModificationsDB. More...
static NucleotideToFragmentAdductMap	getTargetNucleotideToFragmentAdducts (StringList fragment_adducts)
static MS2AdductsOfSinglePrecursorAdduct	getFeasibleFragmentAdducts (const String &exp_pc_adduct, const String &exp_pc_formula, const NucleotideToFragmentAdductMap &nucleotide_to_fragment_adducts, const std::set< char > &can_xl, const bool always_add_default_marker_ions, const bool default_marker_ions_RNA)
static std::vector< NuXLFragmentAdductDefinition >	getMarkerIonsMassSet (const PrecursorsToMS2Adducts &pc2adducts)
static PrecursorsToMS2Adducts	getAllFeasibleFragmentAdducts (const NuXLModificationMassesResult &precursor_adducts, const NucleotideToFragmentAdductMap &nucleotide_to_fragment_adducts, const std::set< char > &can_xl, const bool always_add_default_marker_ions, const bool default_marker_ions_RNA)

Member Typedef Documentation

NucleotideToFragmentAdductMap

using NucleotideToFragmentAdductMap = std::map<char, std::set<NuXLFragmentAdductDefinition> >

PrecursorsToMS2Adducts

using PrecursorsToMS2Adducts = std::map<std::string, MS2AdductsOfSinglePrecursorAdduct>

Member Function Documentation

getAllFeasibleFragmentAdducts()

static PrecursorsToMS2Adducts getAllFeasibleFragmentAdducts ( const NuXLModificationMassesResult &  precursor_adducts, const NucleotideToFragmentAdductMap &  nucleotide_to_fragment_adducts, const std::set< char > &  can_xl, const bool  always_add_default_marker_ions, const bool  default_marker_ions_RNA  )

static

getFeasibleFragmentAdducts()

static MS2AdductsOfSinglePrecursorAdduct getFeasibleFragmentAdducts ( const String &  exp_pc_adduct, const String &  exp_pc_formula, const NucleotideToFragmentAdductMap &  nucleotide_to_fragment_adducts, const std::set< char > &  can_xl, const bool  always_add_default_marker_ions, const bool  default_marker_ions_RNA  )

static

getMarkerIonsMassSet()

static std::vector<NuXLFragmentAdductDefinition> getMarkerIonsMassSet ( const PrecursorsToMS2Adducts &  pc2adducts )

static

getModifications()

static std::vector<ResidueModification> getModifications ( StringList  modNames )

static

Query ResidueModifications (given as strings) from ModificationsDB.

getTargetNucleotideToFragmentAdducts()

static NucleotideToFragmentAdductMap getTargetNucleotideToFragmentAdducts ( StringList  fragment_adducts )

static