Uses of Class
com.compomics.util.parameters.identification.advanced.ModificationLocalizationParameters

Packages that use ModificationLocalizationParameters

Package	Description
com.compomics.util.gui.parameters.identification.advanced	Dialogs for advanced identification parameters.
com.compomics.util.parameters.identification	Identification parameters.
com.compomics.util.parameters.identification.advanced	Advanced Identification parameters.

Uses of ModificationLocalizationParameters in com.compomics.util.gui.parameters.identification.advanced

Methods in com.compomics.util.gui.parameters.identification.advanced that return ModificationLocalizationParameters

Modifier and Type	Method	Description
ModificationLocalizationParameters	ModificationLocalizationParametersDialog.getPtmScoringPreferences()	Returns the PTM scoring preferences as set by the user.

Constructors in com.compomics.util.gui.parameters.identification.advanced with parameters of type ModificationLocalizationParameters

Modifier	Constructor	Description
	ModificationLocalizationParametersDialog(Dialog owner, Frame parentFrame, ModificationLocalizationParameters ptmScoringPreferences, boolean editable)	Creates a new PTMLocalizationParametersDialog with a dialog as owner.
	ModificationLocalizationParametersDialog(Frame parentFrame, ModificationLocalizationParameters ptmScoringPreferences, boolean editable)	Creates a new PTMLocalizationParametersDialog with a frame as owner.

Uses of ModificationLocalizationParameters in com.compomics.util.parameters.identification

Methods in com.compomics.util.parameters.identification that return ModificationLocalizationParameters

Modifier and Type	Method	Description
ModificationLocalizationParameters	IdentificationParameters.getModificationLocalizationParameters()	Returns the modification localization scoring parameters.

Methods in com.compomics.util.parameters.identification with parameters of type ModificationLocalizationParameters

Modifier and Type	Method	Description
void	IdentificationParameters.setModificationLocalizationParameters(ModificationLocalizationParameters modificationLocalizationParameters)	Sets the modification localization parameters.

Constructors in com.compomics.util.parameters.identification with parameters of type ModificationLocalizationParameters

Modifier	Constructor	Description
	IdentificationParameters(String name, String description, SearchParameters searchParameters, AnnotationParameters annotationParameters, SequenceMatchingParameters sequenceMatchingParameters, PeptideVariantsParameters peptideVariantsParameters, GeneParameters geneParameters, PsmScoringParameters psmScoringParameters, PeptideAssumptionFilter peptideAssumptionFilter, ModificationLocalizationParameters ModificationLocalizationParameters, ProteinInferenceParameters proteinInferenceParameters, IdMatchValidationParameters idValidationParameters, FractionParameters fractionParameters, FastaParameters fastaParameters)	Constructor.

Uses of ModificationLocalizationParameters in com.compomics.util.parameters.identification.advanced

Methods in com.compomics.util.parameters.identification.advanced with parameters of type ModificationLocalizationParameters

Modifier and Type	Method	Description
boolean	ModificationLocalizationParameters.equals(ModificationLocalizationParameters otherParameters)	Returns true if the objects have identical settings.