Uses of Class
com.compomics.util.experiment.biology.modifications.ModificationCategory
Package | Description |
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com.compomics.util.experiment.biology.modifications | |
com.compomics.util.parameters.identification.tool_specific |
Parameters settings for the search algorithms.
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Uses of ModificationCategory in com.compomics.util.experiment.biology.modifications
Methods in com.compomics.util.experiment.biology.modifications that return ModificationCategory Modifier and Type Method Description ModificationCategory
Modification. getCategory()
Returns the modification category.static ModificationCategory
ModificationCategory. valueOf(String name)
Returns the enum constant of this type with the specified name.static ModificationCategory[]
ModificationCategory. values()
Returns an array containing the constants of this enum type, in the order they are declared.Methods in com.compomics.util.experiment.biology.modifications with parameters of type ModificationCategory Modifier and Type Method Description ArrayList<String>
ModificationFactory. getModifications(ModificationCategory... modCategories)
Returns the names of all modifications in the given categories.void
Modification. setCategory(ModificationCategory category)
Set the modification category.Constructors in com.compomics.util.experiment.biology.modifications with parameters of type ModificationCategory Constructor Description Modification(ModificationType modificationType, String name, Double mass, ArrayList<String> residues, ModificationCategory category)
Simple constructor for a modification.Modification(ModificationType modificationType, String name, String shortName, AtomChain atomChainAdded, AtomChain atomChainRemoved, AminoAcidPattern aminoAcidPattern, ModificationCategory category)
Constructor for a reference modification.Modification(ModificationType modificationType, String name, String shortName, AtomChain atomChainAdded, AtomChain atomChainRemoved, AminoAcidPattern aminoAcidPattern, CvTerm unimodCvTerm, CvTerm psiModCvTerm, ModificationCategory category)
Constructor for a reference modification. -
Uses of ModificationCategory in com.compomics.util.parameters.identification.tool_specific
Methods in com.compomics.util.parameters.identification.tool_specific that return types with arguments of type ModificationCategory Modifier and Type Method Description ArrayList<ModificationCategory>
MetaMorpheusParameters. getGPtmCategories()
Returns the modification categories to include in the G-PTM search.Method parameters in com.compomics.util.parameters.identification.tool_specific with type arguments of type ModificationCategory Modifier and Type Method Description void
MetaMorpheusParameters. setGPtmCategories(ArrayList<ModificationCategory> gPtmCategories)
Set the modification categories to include in the G-PTM search.