Unimod.hpp File Reference

#include "pwiz/utility/misc/Export.hpp"
#include "pwiz/utility/chemistry/Chemistry.hpp"
#include "pwiz/utility/chemistry/MZTolerance.hpp"
#include "cv.hpp"
#include <boost/enum.hpp>
#include <boost/logic/tribool.hpp>

Go to the source code of this file.

Namespaces
namespace	pwiz
	AMTContainer.hpp.
namespace	pwiz::data
namespace	pwiz::data::unimod

Functions
	pwiz::data::unimod::BOOST_BITFIELD_EX (Site, PWIZ_API_DECL,(Any)(1<< 0)(NTerminus)(1<< 1)(CTerminus)(1<< 2)(Alanine)(1<< 3)(Cysteine)(1<< 4)(AsparticAcid)(1<< 5)(GlutamicAcid)(1<< 6)(Phenylalanine)(1<< 7)(Glycine)(1<< 8)(Histidine)(1<< 9)(Isoleucine)(1<< 10)(Lysine)(1<< 11)(Leucine)(1<< 12)(Methionine)(1<< 13)(Asparagine)(1<< 14)(Proline)(1<< 15)(Glutamine)(1<< 16)(Arginine)(1<< 17)(Serine)(1<< 18)(Threonine)(1<< 19)(Selenocysteine)(1<< 20)(Valine)(1<< 21)(Tryptophan)(1<< 22)(Tyrosine)(1<< 23)) BOOST_ENUM_EX(Position
() Anywhere() AnyNTerminus() AnyCTerminus()	pwiz::data::unimod::ProteinNTerminus (ProteinCTerminus)) BOOST_BITFIELD_EX(Classification
() Anywhere() AnyNTerminus() AnyCTerminus()()	pwiz::data::unimod::Any (1<< 0)(Artifact)(1<< 1)(ChemicalDerivative)(1<< 2)(CoTranslational)(1<< 3)(IsotopicLabel)(1<< 4)(Multiple)(1<< 5)(NLinkedGlycosylation)(1<< 6)(NonStandardResidue)(1<< 7)(OLinkedGlycosylation)(1<< 8)(OtherGlycosylation)(1<< 9)(Other)(1<< 10)(PostTranslational)(1<< 11)(PreTranslational)(1<< 12)(Substitution)(1<< 13)) struct PWIZ_API_DECL Modification
	a modification from Unimod
PWIZ_API_DECL Site	pwiz::data::unimod::site (char symbol)
	returns the Site given a one-letter residue code, or: 'x' for Site::Any, 'n' for Site::NTerminus, 'c' for Site::CTerminus
PWIZ_API_DECL Position	pwiz::data::unimod::position (CVID cvid=CVID_Unknown)
	returns a Position corresponding to one of the following CVIDs: CVID_Unknown: Position::Anywhere MS_modification_specificity_N_term: Position::AnyNTerminus MS_modification_specificity_C_term: Position::AnyCTerminus Else: invalid_argument exception
PWIZ_API_DECL const std::vector< Modification > &	pwiz::data::unimod::modifications ()
	the entire list of Unimod modifications
PWIZ_API_DECL std::vector < Modification >	pwiz::data::unimod::modifications (double mass, double tolerance, tribool monoisotopic=true, tribool approved=true, Site site=Site::Any, Position position=Position::Anywhere, Classification classification=Classification::Any, tribool hidden=indeterminate)
	get a list of modifications by mass and tolerance;
PWIZ_API_DECL const Modification &	pwiz::data::unimod::modification (CVID cvid)
	find a modification by CVID
PWIZ_API_DECL const Modification &	pwiz::data::unimod::modification (const std::string &title)
	find a modification by title, e.g. "Phospho" not "Phosphorylation"

Variables
	pwiz::data::unimod::PWIZ_API_DECL