Uses of Class
com.compomics.util.experiment.identification.matches.PeptideVariantMatches

Packages that use PeptideVariantMatches

Package	Description
com.compomics.util.experiment.biology.proteins	Classes related to proteins.
com.compomics.util.experiment.identification.protein_inference	Classes related to protein inference.

Uses of PeptideVariantMatches in com.compomics.util.experiment.biology.proteins

Methods in com.compomics.util.experiment.biology.proteins that return types with arguments of type PeptideVariantMatches

Modifier and Type	Method	Description
HashMap<String,HashMap<Integer,PeptideVariantMatches>>	Peptide.getVariantMatches()	Returns the sequence variant matches of this peptide indexed by protein accession and peptide start.

Method parameters in com.compomics.util.experiment.biology.proteins with type arguments of type PeptideVariantMatches

Modifier and Type	Method	Description
void	Peptide.setVariantMatches(HashMap<String,HashMap<Integer,PeptideVariantMatches>> variantMatches)	Sets the sequence variant matches of this peptide.

Constructor parameters in com.compomics.util.experiment.biology.proteins with type arguments of type PeptideVariantMatches

Modifier	Constructor	Description
	Peptide(String aSequence, ModificationMatch[] variableModifications, HashMap<String,HashMap<Integer,PeptideVariantMatches>> variantMatches, boolean sanityCheck)	Constructor for the peptide.
	Peptide(String aSequence, ModificationMatch[] variableModifications, HashMap<String,HashMap<Integer,PeptideVariantMatches>> variantMatches, boolean sanityCheck, double mass)	Constructor.

Uses of PeptideVariantMatches in com.compomics.util.experiment.identification.protein_inference

Methods in com.compomics.util.experiment.identification.protein_inference that return PeptideVariantMatches

Modifier and Type	Method	Description
PeptideVariantMatches	PeptideProteinMapping.getPeptideVariantMatches()	Returns eventual variants found.

Methods in com.compomics.util.experiment.identification.protein_inference that return types with arguments of type PeptideVariantMatches

Modifier and Type	Method	Description
static HashMap<String,HashMap<Integer,PeptideVariantMatches>>	PeptideProteinMapping.getVariantMatches(ArrayList<PeptideProteinMapping> peptideProteinMappings)	Returns the variant matches summarized in a map indexed by protein accession and peptide index on the protein sequence.

Constructors in com.compomics.util.experiment.identification.protein_inference with parameters of type PeptideVariantMatches

Modifier	Constructor	Description
	PeptideProteinMapping(String proteinAccession, String peptideSequence, int index, ModificationMatch[] modificationMatches, PeptideVariantMatches peptideVariantMatches)	Constructor.