XICParquetFile.h File Reference

#include <OpenMS/CONCEPT/Types.h>
#include <OpenMS/DATASTRUCTURES/String.h>
#include <OpenMS/FORMAT/ParquetFilter.h>
#include <vector>

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Classes
class	XICParquetFile
	Reader for OpenSWATH chromatogram Parquet files (.xic). More...
struct	XICParquetFile::XICChromatogram
	Lightweight chromatogram container for XIC parquet rows. More...
struct	XICParquetFile::XICRunInfo
	Unique run information (run_id, source_file). More...
struct	XICParquetFile::XICAnalyte
	Analyte metadata container. More...

Namespaces
namespace	OpenMS
	Main OpenMS namespace.

Typedefs
typedef XICParquetFile::XICChromatogram	XICChromatogram
	Convenience alias for the nested XIC chromatogram type.
typedef XICParquetFile::XICRunInfo	XICRunInfo
	Convenience alias for the nested run info type.
typedef XICParquetFile::XICAnalyte	XICAnalyte
	Convenience alias for the nested analyte type.

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Class Documentation

OpenMS::XICParquetFile::XICChromatogram

struct OpenMS::XICParquetFile::XICChromatogram

Lightweight chromatogram container for XIC parquet rows.

Collaboration diagram for XICParquetFile::XICChromatogram:

Class Members
String	annotation
Int64	detecting_transition {0}
bool	has_detecting_transition {false}
bool	has_precursor_charge {false}
bool	has_precursor_decoy {false}
bool	has_precursor_id {false}
bool	has_product_charge {false}
bool	has_product_decoy {false}
bool	has_transition_id {false}
bool	has_transition_ordinal {false}
vector< double >	intensity
String	modified_sequence
Int64	ms_level {0}
Int64	precursor_charge {0}
Int64	precursor_decoy {0}
Int64	precursor_id {0}
Int64	product_charge {0}
Int64	product_decoy {0}
vector< double >	rt
Int64	run_id {0}
String	source_file
Int64	transition_id {0}
Int64	transition_ordinal {0}
String	transition_type

OpenMS::XICParquetFile::XICRunInfo

struct OpenMS::XICParquetFile::XICRunInfo

Unique run information (run_id, source_file).

Collaboration diagram for XICParquetFile::XICRunInfo:

Class Members
Int64	run_id {0}
String	source_file

OpenMS::XICParquetFile::XICAnalyte

struct OpenMS::XICParquetFile::XICAnalyte

Analyte metadata container.

If nest_transitions is false in getAnalytes(), transition-level fields are stored in the scalar members (transition_id, product_charge, etc.). If nest_transitions is true, transition-level fields are stored in the vector members (transition_ids, product_charges, etc.), with one entry per unique transition belonging to the precursor.

Collaboration diagram for XICParquetFile::XICAnalyte:

Class Members
String	annotation
vector< String >	annotations
Int64	detecting_transition {0}
vector< Int64 >	detecting_transitions
bool	has_detecting_transition {false}
bool	has_precursor_charge {false}
bool	has_precursor_decoy {false}
bool	has_precursor_id {false}
bool	has_product_charge {false}
bool	has_product_decoy {false}
bool	has_transition_id {false}
bool	has_transition_ordinal {false}
String	modified_sequence
Int64	precursor_charge {0}
Int64	precursor_decoy {0}
Int64	precursor_id {0}
Int64	product_charge {0}
vector< Int64 >	product_charges
Int64	product_decoy {0}
vector< Int64 >	product_decoys
Int64	transition_id {0}
vector< Int64 >	transition_ids
Int64	transition_ordinal {0}
vector< Int64 >	transition_ordinals
String	transition_type
vector< String >	transition_types