java.lang.Object
com.compomics.util.experiment.identification.protein_inference.PeptideProteinMapping

public class PeptideProteinMapping
extends Object
Class used to model the mapping of a peptide to a protein sequence.
Author:
Marc Vaudel
  • Field Details

    • fmIndexPosition

      public int fmIndexPosition
      The position in the FM index.
  • Constructor Details

    • PeptideProteinMapping

      public PeptideProteinMapping()
      Empty default constructor.
    • PeptideProteinMapping

      public PeptideProteinMapping​(String proteinAccession, String peptideSequence, int index, ModificationMatch[] modificationMatches, PeptideVariantMatches peptideVariantMatches)
      Constructor.
      Parameters:
      proteinAccession - the accession of the protein
      peptideSequence - the peptide sequence
      index - the index on the protein
      modificationMatches - eventual modification matches
      peptideVariantMatches - eventual sequence variants
    • PeptideProteinMapping

      public PeptideProteinMapping​(String proteinAccession, String peptideSequence, int index)
      Constructor.
      Parameters:
      proteinAccession - the accession of the protein
      peptideSequence - the peptide sequence
      index - the index on the protein
    • PeptideProteinMapping

      public PeptideProteinMapping​(String proteinAccession, String peptideSequence, int index, ModificationMatch[] modificationMatches)
      Constructor.
      Parameters:
      proteinAccession - the accession of the protein
      peptideSequence - the peptide sequence
      index - the index on the protein
      modificationMatches - modification matches
  • Method Details