org.expasy.mzjava.proteomics.ms.fragment

Interface PeptidePeakGenerator<A extends PeakAnnotation>

All Known Implementing Classes:

BackbonePeakGenerator, PeptideNeutralLossPeakGenerator

public interface PeptidePeakGenerator<A extends PeakAnnotation>

Version:

1.0

Author:

Oliver Horlacher

Method Summary

Methods

Modifier and Type	Method and Description
List<AnnotatedPeak<A>>	generatePeaks(Peptide precursor, PeptideFragment fragment, int[] charges, List<AnnotatedPeak<A>> peaks) Generate peaks that are observed for the fragment at the supplied charge states.
Set<FragmentType>	getFragmentTypes()

Method Detail

generatePeaks

List<AnnotatedPeak<A>> generatePeaks(Peptide precursor,
                                   PeptideFragment fragment,
                                   int[] charges,
                                   List<AnnotatedPeak<A>> peaks)

Generate peaks that are observed for the fragment at the supplied charge states. The generated peaks are to be added to peaks

Parameters:

precursor - the peptide that this fragment was derived from

fragment - the fragment

charges - the charges for which to generate peaks

peaks - the list of peaks

Returns:

the peaks list that was passed in

getFragmentTypes

Set<FragmentType> getFragmentTypes()