OpenSwathOSWParquetReader.h File Reference

#include <OpenMS/CONCEPT/Types.h>
#include <OpenMS/DATASTRUCTURES/StringUtils.h>
#include <map>
#include <vector>

Include dependency graph for OpenSwathOSWParquetReader.h:

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Classes
class	OpenSwathOSWParquetReader
	Reader for OpenSwath OSW Parquet output. More...
struct	OpenSwathOSWParquetReader::Row
	Single extracted row combining feature + precursor + run metadata. More...
struct	OpenSwathOSWParquetReader::PeakGroupFeatureScoresResult
struct	OpenSwathOSWParquetReader::TransitionFeaturesResult
	Result container for transition-level features. More...
struct	OpenSwathOSWParquetReader::UnscoredResult
	Result container for an unscored table. More...

Namespaces
namespace	OpenMS
	Main OpenMS namespace.

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Class Documentation

OpenMS::OpenSwathOSWParquetReader::Row

struct OpenMS::OpenSwathOSWParquetReader::Row

Single extracted row combining feature + precursor + run metadata.

Collaboration diagram for OpenSwathOSWParquetReader::Row:

Class Members
bool	decoy = false
double	exp_rt = 0.0
int64_t	feature_id = 0
string	group_id
double	ms2_apex_intensity = 0.0
double	ms2_area_intensity = 0.0
double	ms2_total_area_intensity = 0.0
int	precursor_charge = 0
int64_t	precursor_id = 0
int64_t	run_id = 0
int64_t	transition_count = 0

OpenMS::OpenSwathOSWParquetReader::PeakGroupFeatureScoresResult

struct OpenMS::OpenSwathOSWParquetReader::PeakGroupFeatureScoresResult

Result container for fetchPeakGroupFeatures Contains discovered MS2 and optional MS1 score columns alongside core feature columns.

Collaboration diagram for OpenSwathOSWParquetReader::PeakGroupFeatureScoresResult:

Class Members
vector< bool >	decoy
vector< double >	exp_rt
vector< int64_t >	feature_id
vector< string >	group_id
vector< string >	ms1_columns
vector< vector< double > >	ms1_values
vector< string >	ms2_columns
vector< vector< double > >	ms2_values
vector< int >	precursor_charge
vector< int64_t >	precursor_id
vector< int64_t >	run_id
vector< int64_t >	transition_count

OpenMS::OpenSwathOSWParquetReader::TransitionFeaturesResult

struct OpenMS::OpenSwathOSWParquetReader::TransitionFeaturesResult

Result container for transition-level features.

Collaboration diagram for OpenSwathOSWParquetReader::TransitionFeaturesResult:

Class Members
vector< double >	apex_intensity
vector< double >	apex_rt
vector< double >	area_intensity
vector< bool >	decoy
vector< double >	exp_rt
vector< int64_t >	feature_id
vector< string >	group_id
vector< double >	masserror_ppm
vector< int >	precursor_charge
vector< int64_t >	precursor_id
vector< int >	product_charge
vector< double >	rt_fwhm
vector< int64_t >	run_id
vector< double >	total_area_intensity
vector< double >	total_mi
vector< int64_t >	transition_id
vector< string >	transition_var_columns
vector< vector< double > >	transition_var_values

OpenMS::OpenSwathOSWParquetReader::UnscoredResult

struct OpenMS::OpenSwathOSWParquetReader::UnscoredResult

Result container for an unscored table.

An "unscored" table contains feature-level columns but does not include discriminant scores or FDR estimates. Provides many columns (feature, precursor, run, MS1/MS2 metrics and discovered feature score columns).

Collaboration diagram for OpenSwathOSWParquetReader::UnscoredResult:

Class Members
vector< double >	aggr_prec_Peak_Apex
vector< double >	aggr_prec_Peak_Area
vector< double >	assay_rt
vector< double >	assay_RT
vector< int >	Charge
vector< bool >	decoy
vector< double >	delta_rt
vector< double >	delta_RT
vector< double >	EXP_IM
vector< string >	filename
vector< int64_t >	id
vector< int64_t >	id_peptide
vector< int64_t >	id_run
vector< double >	IM_leftWidth
vector< double >	IM_rightWidth
vector< double >	Intensity
vector< double >	leftWidth
vector< string >	ms1_columns
vector< vector< double > >	ms1_values
vector< string >	ms2_columns
vector< vector< double > >	ms2_values
vector< double >	mz
vector< double >	rightWidth
vector< double >	RT
vector< int64_t >	run_id
vector< int64_t >	transition_group_id