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Static Public Member Functions | Static Public Attributes | List of all members
QPXPgSchema Struct Reference

Schema for QPX protein group export (quantms Parquet eXchange format, pg table) More...

#include <OpenMS/FORMAT/ArrowSchemaRegistry.h>

Collaboration diagram for QPXPgSchema:
[legend]

Static Public Member Functions

static std::shared_ptr< arrow::DataType > intensitiesType ()
 Arrow type for intensities: list<struct{label, intensity}> (nullable for search-engine output)
 
static std::shared_ptr< arrow::DataType > additionalIntensitiesType ()
 Arrow type for additional intensities: list<struct{label, intensities: list<struct{...}>}>
 
static std::shared_ptr< arrow::DataType > peptidesType ()
 Arrow type for peptides: list<struct{protein_name, peptide_count}>
 
static std::shared_ptr< arrow::DataType > peptideCountsType ()
 Arrow type for peptide_counts: struct{unique_sequences, total_sequences}.
 
static std::shared_ptr< arrow::DataType > featureCountsType ()
 Arrow type for feature_counts: struct{unique_features, total_features}.
 
static std::shared_ptr< arrow::DataType > additionalScoresType ()
 Arrow type for additional scores (delegates to QPXPSMSchema::additionalScoresType)
 
static std::shared_ptr< arrow::DataType > cvParamsType ()
 Arrow type for CV params (delegates to QPXPSMSchema::cvParamsType)
 
static std::shared_ptr< arrow::Schema > schema ()
 Complete Arrow schema for QPX pg table (20 fields)
 

Static Public Attributes

static constexpr const char * PG_ACCESSIONS = "pg_accessions"
 
static constexpr const char * PG_NAMES = "pg_names"
 
static constexpr const char * GG_ACCESSIONS = "gg_accessions"
 
static constexpr const char * GG_NAMES = "gg_names"
 
static constexpr const char * GG_QVALUE = "gg_qvalue"
 
static constexpr const char * ANCHOR_PROTEIN = "anchor_protein"
 
static constexpr const char * RUN_FILE_NAME = "run_file_name"
 
static constexpr const char * GLOBAL_QVALUE = "global_qvalue"
 
static constexpr const char * PG_QVALUE = "pg_qvalue"
 
static constexpr const char * INTENSITIES = "intensities"
 
static constexpr const char * ADDITIONAL_INTENSITIES = "additional_intensities"
 
static constexpr const char * IS_DECOY = "is_decoy"
 
static constexpr const char * CONTAMINANT = "contaminant"
 
static constexpr const char * PEPTIDES = "peptides"
 
static constexpr const char * PEPTIDE_COUNTS = "peptide_counts"
 
static constexpr const char * FEATURE_COUNTS = "feature_counts"
 
static constexpr const char * SEQUENCE_COVERAGE = "sequence_coverage"
 
static constexpr const char * MOLECULAR_WEIGHT = "molecular_weight"
 
static constexpr const char * ADDITIONAL_SCORES = "additional_scores"
 
static constexpr const char * CV_PARAMS = "cv_params"
 

Detailed Description

Schema for QPX protein group export (quantms Parquet eXchange format, pg table)

Defines column names, nested Arrow types, and the complete schema for protein group data in the QPX format. Supports both quantified (ConsensusMap) and identification-only (search engine) output — quantification columns are nullable.

Member Function Documentation

◆ additionalIntensitiesType()

static std::shared_ptr< arrow::DataType > additionalIntensitiesType ( )
static

Arrow type for additional intensities: list<struct{label, intensities: list<struct{...}>}>

◆ additionalScoresType()

static std::shared_ptr< arrow::DataType > additionalScoresType ( )
static

Arrow type for additional scores (delegates to QPXPSMSchema::additionalScoresType)

◆ cvParamsType()

static std::shared_ptr< arrow::DataType > cvParamsType ( )
static

Arrow type for CV params (delegates to QPXPSMSchema::cvParamsType)

◆ featureCountsType()

static std::shared_ptr< arrow::DataType > featureCountsType ( )
static

Arrow type for feature_counts: struct{unique_features, total_features}.

◆ intensitiesType()

static std::shared_ptr< arrow::DataType > intensitiesType ( )
static

Arrow type for intensities: list<struct{label, intensity}> (nullable for search-engine output)

◆ peptideCountsType()

static std::shared_ptr< arrow::DataType > peptideCountsType ( )
static

Arrow type for peptide_counts: struct{unique_sequences, total_sequences}.

◆ peptidesType()

static std::shared_ptr< arrow::DataType > peptidesType ( )
static

Arrow type for peptides: list<struct{protein_name, peptide_count}>

◆ schema()

static std::shared_ptr< arrow::Schema > schema ( )
static

Complete Arrow schema for QPX pg table (20 fields)

Member Data Documentation

◆ ADDITIONAL_INTENSITIES

constexpr const char* ADDITIONAL_INTENSITIES = "additional_intensities"
staticconstexpr

◆ ADDITIONAL_SCORES

constexpr const char* ADDITIONAL_SCORES = "additional_scores"
staticconstexpr

◆ ANCHOR_PROTEIN

constexpr const char* ANCHOR_PROTEIN = "anchor_protein"
staticconstexpr

◆ CONTAMINANT

constexpr const char* CONTAMINANT = "contaminant"
staticconstexpr

◆ CV_PARAMS

constexpr const char* CV_PARAMS = "cv_params"
staticconstexpr

◆ FEATURE_COUNTS

constexpr const char* FEATURE_COUNTS = "feature_counts"
staticconstexpr

◆ GG_ACCESSIONS

constexpr const char* GG_ACCESSIONS = "gg_accessions"
staticconstexpr

◆ GG_NAMES

constexpr const char* GG_NAMES = "gg_names"
staticconstexpr

◆ GG_QVALUE

constexpr const char* GG_QVALUE = "gg_qvalue"
staticconstexpr

◆ GLOBAL_QVALUE

constexpr const char* GLOBAL_QVALUE = "global_qvalue"
staticconstexpr

◆ INTENSITIES

constexpr const char* INTENSITIES = "intensities"
staticconstexpr

◆ IS_DECOY

constexpr const char* IS_DECOY = "is_decoy"
staticconstexpr

◆ MOLECULAR_WEIGHT

constexpr const char* MOLECULAR_WEIGHT = "molecular_weight"
staticconstexpr

◆ PEPTIDE_COUNTS

constexpr const char* PEPTIDE_COUNTS = "peptide_counts"
staticconstexpr

◆ PEPTIDES

constexpr const char* PEPTIDES = "peptides"
staticconstexpr

◆ PG_ACCESSIONS

constexpr const char* PG_ACCESSIONS = "pg_accessions"
staticconstexpr

◆ PG_NAMES

constexpr const char* PG_NAMES = "pg_names"
staticconstexpr

◆ PG_QVALUE

constexpr const char* PG_QVALUE = "pg_qvalue"
staticconstexpr

◆ RUN_FILE_NAME

constexpr const char* RUN_FILE_NAME = "run_file_name"
staticconstexpr

◆ SEQUENCE_COVERAGE

constexpr const char* SEQUENCE_COVERAGE = "sequence_coverage"
staticconstexpr