Package | Description |
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com.compomics.util.experiment.biology.proteins |
Classes related to proteins.
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com.compomics.util.experiment.identification.protein_inference |
Classes related to protein inference.
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Modifier and Type | Method and Description |
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HashMap<String,HashMap<Integer,PeptideVariantMatches>> |
Peptide.getVariantMatches()
Returns the sequence variant matches of this peptide indexed by protein
accession and peptide start.
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Modifier and Type | Method and Description |
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void |
Peptide.setVariantMatches(HashMap<String,HashMap<Integer,PeptideVariantMatches>> variantMatches)
Sets the sequence variant matches of this peptide.
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Constructor and Description |
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Peptide(String aSequence,
ModificationMatch[] modificationMatches,
HashMap<String,HashMap<Integer,PeptideVariantMatches>> variantMatches,
boolean sanityCheck)
Constructor for the peptide.
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Peptide(String aSequence,
ModificationMatch[] modificationMatches,
HashMap<String,HashMap<Integer,PeptideVariantMatches>> variantMatches,
boolean sanityCheck,
double mass)
Constructor.
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Modifier and Type | Method and Description |
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PeptideVariantMatches |
PeptideProteinMapping.getPeptideVariantMatches()
Returns eventual variants found.
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Modifier and Type | Method and Description |
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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.
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Constructor and Description |
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PeptideProteinMapping(String proteinAccession,
String peptideSequence,
int index,
ModificationMatch[] modificationMatches,
PeptideVariantMatches peptideVariantMatches)
Constructor.
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