TransitionListEvidenceFilter.h File Reference

#include <OpenMS/ANALYSIS/OPENSWATH/OpenSwathWorkflow.h>
#include <OpenMS/CONCEPT/Types.h>
#include <OpenMS/CONCEPT/ProgressLogger.h>
#include <OpenMS/DATASTRUCTURES/DefaultParamHandler.h>
#include <OpenMS/OPENSWATHALGO/DATAACCESS/SwathMap.h>
#include <OpenMS/OPENSWATHALGO/DATAACCESS/TransitionExperiment.h>
#include <string>
#include <vector>

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Classes
class	TransitionListEvidenceFilter
	Prefilter transition-library precursors by quick raw-data evidence. More...
struct	TransitionListEvidenceFilter::PrecursorEvidence
	Compact evidence summary for one target precursor candidate. More...
struct	TransitionListEvidenceFilter::Result
	Result of filtering one run against one transition experiment. More...

Namespaces
namespace	OpenMS
	Main OpenMS namespace.

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Class Documentation

OpenMS::TransitionListEvidenceFilter::PrecursorEvidence

struct OpenMS::TransitionListEvidenceFilter::PrecursorEvidence

Compact evidence summary for one target precursor candidate.

Collaboration diagram for TransitionListEvidenceFilter::PrecursorEvidence:

Class Members
string	compound_id	Compound/peptide identifier in the transition experiment.
double	ms1_best_rt {-1.0}	RT of the strongest matched MS1 peak, or -1 if unsupported.
Size	ms1_hit_count {0}	Number of MS1 peak matches.
double	ms1_max_intensity {0.0}	Maximum matched MS1 peak intensity.
double	ms1_sum_intensity {0.0}	Sum of matched MS1 peak intensities.
Size	ms2_best_fragment_hits {0}	Best number of distinct MS2 fragment hits in a single spectrum.
double	ms2_best_rt {-1.0}	RT of the strongest supporting MS2 spectrum, or -1 if unsupported.
Size	ms2_hit_count {0}	Total number of distinct MS2 fragment matches across supporting spectra.
double	ms2_max_intensity {0.0}	Maximum matched MS2 peak intensity.
double	ms2_sum_intensity {0.0}	Sum of matched MS2 peak intensities from supporting spectra.
double	precursor_im {-1.0}	Library precursor ion mobility, or -1 if unavailable.
double	precursor_mz {0.0}	Precursor m/z used for matching.
string	sequence	Peptide sequence, if present in the transition experiment.
bool	supported_ms1 {false}	Whether MS1 precursor evidence was observed.
bool	supported_ms2 {false}	Whether MS2 fragment evidence was observed.

OpenMS::TransitionListEvidenceFilter::Result

struct OpenMS::TransitionListEvidenceFilter::Result

Result of filtering one run against one transition experiment.

Collaboration diagram for TransitionListEvidenceFilter::Result:

Class Members
vector< PrecursorEvidence >	evidence	Per-candidate evidence, in the same order as the internal target candidates.
LightTargetedExperiment	filtered_targets	Target-only filtered transition experiment for auto-iRT sampling.
Size	hybrid_supported {0}	Number of candidates with both MS1 and MS2 evidence.
Size	ms1_supported {0}	Number of candidates with MS1 evidence.
Size	ms2_supported {0}	Number of candidates with MS2 evidence.
double	precursor_im_scale {1.0}	Scale factor applied to precursor ion mobility values for matching and filtered output.
bool	precursor_im_scaled_by_charge {false}	Whether precursor ion mobility values were also multiplied by precursor charge.
string	summary	Human-readable summary for logging.
Size	supported_precursors {0}	Number of candidates supported by the configured evidence source(s).
Size	total_target_precursors {0}	Total number of non-decoy precursor candidates considered.