Uses of Class
eu.isas.reporter.settings.ReporterIonSelectionSettings

Packages that use ReporterIonSelectionSettings

Package	Description
eu.isas.reporter	Main package.
eu.isas.reporter.calculation	Package containing classes used for the calculation.
eu.isas.reporter.gui.settings.quantification	Package containing GUI classes used for the edition of the quantification settings.
eu.isas.reporter.settings	Package containing the different settings.

Uses of ReporterIonSelectionSettings in eu.isas.reporter

Methods in eu.isas.reporter with parameters of type ReporterIonSelectionSettings

Modifier and Type	Method	Description
static PsmQuantificationDetails	Reporter.estimatePSMQuantificationDetails(com.compomics.util.experiment.identification.Identification identification, com.compomics.util.experiment.mass_spectrometry.SpectrumProvider spectrumProvider, QuantificationFeaturesGenerator quantificationFeaturesGenerator, ReporterIonSelectionSettings reporterIonSelectionSettings, RatioEstimationSettings ratioEstimationSettings, com.compomics.util.experiment.quantification.reporterion.ReporterIonQuantification reporterIonQuantification, Long matchKey)	Returns the quantification details of a PSM.
static SpectrumQuantificationDetails	Reporter.estimateSpectrumQuantificationDetails(com.compomics.util.experiment.identification.Identification identification, com.compomics.util.experiment.mass_spectrometry.SpectrumProvider spectrumProvider, QuantificationFeaturesGenerator quantificationFeaturesGenerator, com.compomics.util.experiment.quantification.reporterion.ReporterIonQuantification reporterIonQuantification, ReporterIonSelectionSettings reporterIonSelectionSettings, com.compomics.util.experiment.identification.matches.SpectrumMatch aSpectrumMatch)	Returns the quantification details of a spectrum.

Uses of ReporterIonSelectionSettings in eu.isas.reporter.calculation

Methods in eu.isas.reporter.calculation with parameters of type ReporterIonSelectionSettings

Modifier and Type	Method	Description
SpectrumQuantificationDetails	QuantificationFeaturesGenerator.getSpectrumQuantificationDetails(com.compomics.util.experiment.mass_spectrometry.SpectrumProvider spectrumProvider, com.compomics.util.experiment.quantification.reporterion.ReporterIonQuantification reporterIonQuantification, ReporterIonSelectionSettings reporterIonSelectionSettings, com.compomics.util.experiment.identification.matches.SpectrumMatch aSpectrumMatch)	Returns the quantification details of a spectrum.

Uses of ReporterIonSelectionSettings in eu.isas.reporter.gui.settings.quantification

Methods in eu.isas.reporter.gui.settings.quantification that return ReporterIonSelectionSettings

Modifier and Type	Method	Description
ReporterIonSelectionSettings	ReporterIonSelectionSettingsDialog.getReporterIonSelectionSettings()	Returns the settings as set by the user.

Constructors in eu.isas.reporter.gui.settings.quantification with parameters of type ReporterIonSelectionSettings

Modifier	Constructor	Description
	ReporterIonSelectionSettingsDialog(JDialog parentDialog, ReporterIonSelectionSettings reporterIonSelectionSettings, boolean editable)	Creates a new ReporterIonSelectionSettingsDialog.
	ReporterIonSelectionSettingsDialog(JDialog parentDialog, ReporterIonSelectionSettings reporterIonSelectionSettings, com.compomics.util.experiment.quantification.reporterion.ReporterMethod reporterMethod, boolean editable)	Creates a new ReporterIonSelectionSettingsDialog.

Uses of ReporterIonSelectionSettings in eu.isas.reporter.settings

Methods in eu.isas.reporter.settings that return ReporterIonSelectionSettings

Modifier and Type	Method	Description
ReporterIonSelectionSettings	ReporterIonSelectionSettings.clone()
ReporterIonSelectionSettings	ReporterSettings.getReporterIonSelectionSettings()	Returns the reporter ion selection settings.

Methods in eu.isas.reporter.settings with parameters of type ReporterIonSelectionSettings

Modifier and Type	Method	Description
boolean	ReporterIonSelectionSettings.isSameAs(ReporterIonSelectionSettings anotherSetting)	Indicates whether another setting is the same as this one.
void	ReporterSettings.setReporterIonSelectionSettings(ReporterIonSelectionSettings reporterIonSelectionSettings)	Sets the reporter ion selection settings.