FragmentIndex.h File Reference

#include <OpenMS/CHEMISTRY/AASequence.h>
#include <OpenMS/DATASTRUCTURES/DefaultParamHandler.h>
#include <OpenMS/FORMAT/FASTAFile.h>
#include <OpenMS/KERNEL/MSExperiment.h>
#include <OpenMS/KERNEL/Peak1D.h>
#include <vector>
#include <functional>

Include dependency graph for FragmentIndex.h:

Go to the source code of this file.

Classes
class	FragmentIndex
	Generates from a set of Fasta files a 2D-datastructure which stores all theoretical masses of all b and y ions from all peptides generated from the Fasta file. The datastructure is build such that on one axis the fragments are sorted by their own mass and the axis by the mass of their precursor/protein. The FI has two options: Bottom-up and Top Down. In later digestion is skiped and the fragments have a direct reference to the mass of the proteins instead of digested peptides. More...
struct	FragmentIndex::Peptide
	Compact descriptor of a peptide instance held by the FragmentIndex. More...
struct	FragmentIndex::SpectrumMatch
	Match between a query peak and an entry in the DB. More...
struct	FragmentIndex::SpectrumMatchesTopN
	container for SpectrumMatch. Also keeps count of total number of candidates and total number of matches. More...
struct	FragmentIndex::Hit
struct	FragmentIndex::Fragment
	One entry in the fragment index. More...

Namespaces
	OpenMS
	Main OpenMS namespace.

---

Class Documentation

OpenMS::FragmentIndex::SpectrumMatch

struct OpenMS::FragmentIndex::SpectrumMatch

Match between a query peak and an entry in the DB.

Collaboration diagram for FragmentIndex::SpectrumMatch:

Class Members
int16_t	isotope_error_
uint32_t	num_matched_	Number of peaks-fragment hits.
size_t	peptide_idx_	< The isotope_error used for the performed search The idx this struct belongs to
uint16_t	precursor_charge_	The precursor_charged used for the performed search.