NuXLFragmentAnnotationHelper Class Reference

Convenience functions to construct appealing fragment annotation strings and store them as PeptideHit::PeakAnnotation. More...

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

Classes
struct	FragmentAnnotationDetail_
	Single fragment annotation. More...

Static Public Member Functions
static std::string	getAnnotatedImmoniumIon (char c, const std::string &fragment_shift_name)
static std::vector< PeptideHit::PeakAnnotation >	fragmentAnnotationDetailsToPHFA (const std::string &ion_type, const std::map< Size, std::vector< FragmentAnnotationDetail_ > > &ion_annotation_details)
	conversion of NuXL annotations to PeptideHit::PeakAnnotation
static std::vector< PeptideHit::PeakAnnotation >	shiftedToPHFA (const std::map< std::string, std::set< std::pair< std::string, double > > > &shifted_ions)
static std::string	shiftedIonsToString (const std::vector< PeptideHit::PeakAnnotation > &as)
static void	addShiftedPeakFragmentAnnotation_ (const std::map< Size, std::vector< FragmentAnnotationDetail_ > > &shifted_b_ions, const std::map< Size, std::vector< FragmentAnnotationDetail_ > > &shifted_y_ions, const std::map< Size, std::vector< FragmentAnnotationDetail_ > > &shifted_a_ions, const std::vector< PeptideHit::PeakAnnotation > &shifted_immonium_ions, const std::vector< PeptideHit::PeakAnnotation > &annotated_marker_ions, const std::vector< PeptideHit::PeakAnnotation > &annotated_precursor_ions, std::vector< PeptideHit::PeakAnnotation > &fas)

Detailed Description

Convenience functions to construct appealing fragment annotation strings and store them as PeptideHit::PeakAnnotation.

Member Function Documentation

addShiftedPeakFragmentAnnotation_()

static void addShiftedPeakFragmentAnnotation_ ( const std::map< Size, std::vector< FragmentAnnotationDetail_ > > &  shifted_b_ions, const std::map< Size, std::vector< FragmentAnnotationDetail_ > > &  shifted_y_ions, const std::map< Size, std::vector< FragmentAnnotationDetail_ > > &  shifted_a_ions, const std::vector< PeptideHit::PeakAnnotation > &  shifted_immonium_ions, const std::vector< PeptideHit::PeakAnnotation > &  annotated_marker_ions, const std::vector< PeptideHit::PeakAnnotation > &  annotated_precursor_ions, std::vector< PeptideHit::PeakAnnotation > &  fas  )

static

fragmentAnnotationDetailsToPHFA()

static std::vector< PeptideHit::PeakAnnotation > fragmentAnnotationDetailsToPHFA ( const std::string &  ion_type, const std::map< Size, std::vector< FragmentAnnotationDetail_ > > &  ion_annotation_details  )

static

conversion of NuXL annotations to PeptideHit::PeakAnnotation

getAnnotatedImmoniumIon()

static std::string getAnnotatedImmoniumIon ( char  c, const std::string &  fragment_shift_name  )

static

shiftedIonsToString()

static std::string shiftedIonsToString ( const std::vector< PeptideHit::PeakAnnotation > &  as )

static

shiftedToPHFA()

static std::vector< PeptideHit::PeakAnnotation > shiftedToPHFA ( const std::map< std::string, std::set< std::pair< std::string, double > > > &  shifted_ions )

static