Package | Description |
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com.compomics.util.gui.parameters.identification_parameters |
GUI classes for parameters, settings and preferences used for identification.
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com.compomics.util.preferences |
Utilities preferences classes.
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Modifier and Type | Method and Description |
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PTMScoringPreferences |
PTMLocalizationParametersDialog.getPtmScoringPreferences()
Returns the PTM scoring preferences as set by the user.
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Constructor and Description |
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PTMLocalizationParametersDialog(Dialog owner,
Frame parentFrame,
PTMScoringPreferences ptmScoringPreferences,
boolean editable)
Creates a new PTMLocalizationParametersDialog with a dialog as owner.
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PTMLocalizationParametersDialog(Frame parentFrame,
PTMScoringPreferences ptmScoringPreferences,
boolean editable)
Creates a new PTMLocalizationParametersDialog with a frame as owner.
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Modifier and Type | Method and Description |
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PTMScoringPreferences |
IdentificationParameters.getPtmScoringPreferences()
Returns the PTM localization scoring preferences.
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Modifier and Type | Method and Description |
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boolean |
PTMScoringPreferences.equals(PTMScoringPreferences otherPtmScoringPreferences)
Returns true if the objects have identical settings.
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void |
IdentificationParameters.setPtmScoringPreferences(PTMScoringPreferences ptmScoringPreferences)
Sets the PTM localization scoring preferences.
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Constructor and Description |
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IdentificationParameters(String name,
String description,
SearchParameters searchParameters,
AnnotationSettings annotationSettings,
SequenceMatchingPreferences sequenceMatchingPreferences,
GenePreferences genePreferences,
PsmScoringPreferences psmScoringPreferences,
PeptideAssumptionFilter peptideAssumptionFilter,
PTMScoringPreferences ptmScoringPreferences,
ProteinInferencePreferences proteinInferencePreferences,
IdMatchValidationPreferences idValidationPreferences,
FractionSettings fractionSettings)
Constructor.
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