MzMLSqliteSwathHandler Class Reference

Sqlite handler for SWATH data sets. More...

#include <OpenMS/FORMAT/HANDLERS/MzMLSqliteSwathHandler.h>

Public Member Functions
	MzMLSqliteSwathHandler (String filename)
	Constructor. More...
std::vector< OpenSwath::SwathMap >	readSwathWindows ()
	Read SWATH windows boundaries from file. More...
std::vector< int >	readMS1Spectra ()
	Read indices of MS1 spectra from file. More...
std::vector< int >	readSpectraForWindow (OpenSwath::SwathMap swath_map)
	Read indices of spectra belonging to specified SWATH window from file. More...

Protected Member Functions
sqlite3 *	openDB ()

Protected Attributes
String	filename_
Base64	base64coder_
	Decoder/Encoder for Base64-data in MzML. More...
MSNumpressCoder	numpress_coder_
Int	spec_id_
Int	chrom_id_

Detailed Description

Sqlite handler for SWATH data sets.

This class represents a single sqMass file acquired in SWATH / DIA mode and provides some useful access to the indices of the individual SWATH windows.

Constructor & Destructor Documentation

MzMLSqliteSwathHandler()

MzMLSqliteSwathHandler ( String  filename )

inline

Constructor.

Parameters

filename

The sqMass filename

Member Function Documentation

openDB()

sqlite3* openDB ( )

protected

readMS1Spectra()

std::vector<int> readMS1Spectra

(

)

Read indices of MS1 spectra from file.

Returns

A list of spectral indices for the MS1 spectra

readSpectraForWindow()

std::vector<int> readSpectraForWindow

(

OpenSwath::SwathMap

swath_map

)

Read indices of spectra belonging to specified SWATH window from file.

Parameters

swath_map

Contains the upper/lower boundaries of the SWATH window

Returns

A list of spectral indices for the provided SWATH window

readSwathWindows()

std::vector<OpenSwath::SwathMap> readSwathWindows

(

)

Read SWATH windows boundaries from file.

Returns

A vector populated with SwathMap, with the following attributes initialized: center, lower and upper

Member Data Documentation

base64coder_

Base64 base64coder_

protected

Decoder/Encoder for Base64-data in MzML.

chrom_id_

Int chrom_id_

protected

filename_

String filename_

protected

numpress_coder_

MSNumpressCoder numpress_coder_

protected

spec_id_

Int spec_id_

protected