Uses of Class
com.compomics.util.parameters.identification.advanced.PeptideVariantsParameters
Package | Description |
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com.compomics.util.experiment.identification.protein_inference.fm_index |
Protein sequence database indexing classes based on Burrows-Wheeler transform.
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com.compomics.util.gui.parameters.identification.advanced |
Dialogs for advanced identification parameters.
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com.compomics.util.parameters.identification |
Identification parameters.
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com.compomics.util.parameters.identification.advanced |
Advanced Identification parameters.
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Uses of PeptideVariantsParameters in com.compomics.util.experiment.identification.protein_inference.fm_index
Constructors in com.compomics.util.experiment.identification.protein_inference.fm_index with parameters of type PeptideVariantsParameters Constructor Description FMIndex(File fastaFile, FastaParameters fastaParameters, WaitingHandler waitingHandler, boolean displayProgress, PeptideVariantsParameters peptideVariantsPreferences, SearchParameters searchParameters)
Constructor. -
Uses of PeptideVariantsParameters in com.compomics.util.gui.parameters.identification.advanced
Methods in com.compomics.util.gui.parameters.identification.advanced that return PeptideVariantsParameters Modifier and Type Method Description PeptideVariantsParameters
PeptideVariantsParametersDialog. getPeptideVariantsPreferences()
Returns the peptide variants settings as set by the user.Constructors in com.compomics.util.gui.parameters.identification.advanced with parameters of type PeptideVariantsParameters Constructor Description PeptideVariantsParametersDialog(Dialog owner, Frame parentFrame, PeptideVariantsParameters peptideVariantPreferences, boolean editable)
Creates a new FractionSettingsDialog with a dialog as owner.PeptideVariantsParametersDialog(Frame parentFrame, PeptideVariantsParameters peptideVariantPreferences, boolean editable)
Creates a new FractionSettingsDialog with a frame as owner. -
Uses of PeptideVariantsParameters in com.compomics.util.parameters.identification
Methods in com.compomics.util.parameters.identification that return PeptideVariantsParameters Modifier and Type Method Description PeptideVariantsParameters
IdentificationParameters. getPeptideVariantsParameters()
Returns the peptide variant parameters.Methods in com.compomics.util.parameters.identification with parameters of type PeptideVariantsParameters Modifier and Type Method Description void
IdentificationParameters. setPeptideVariantsParameters(PeptideVariantsParameters peptideVariantsParameters)
Sets the peptide variant parameters.Constructors in com.compomics.util.parameters.identification with parameters of type PeptideVariantsParameters 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 PeptideVariantsParameters in com.compomics.util.parameters.identification.advanced
Methods in com.compomics.util.parameters.identification.advanced that return PeptideVariantsParameters Modifier and Type Method Description static PeptideVariantsParameters
PeptideVariantsParameters. getNoVariantPreferences()
Returns the preferences corresponding to no variants allowed.Methods in com.compomics.util.parameters.identification.advanced with parameters of type PeptideVariantsParameters Modifier and Type Method Description boolean
PeptideVariantsParameters. isSameAs(PeptideVariantsParameters peptideVariantsPreferences)
Indicates whether another peptide variant preferences is the same as this one.