eu.isas.peptideshaker.protein_inference

Class TagMapper

java.lang.Object

eu.isas.peptideshaker.protein_inference.TagMapper

public class TagMapper
extends Object

This class can be used to map tags to proteins.

Author:

Marc Vaudel

Constructor Summary

Constructors

Constructor and Description
TagMapper(com.compomics.util.parameters.identification.IdentificationParameters identificationParameters, com.compomics.util.exceptions.ExceptionHandler exceptionHandler) Constructor.

Method Summary

Modifier and Type	Method and Description
void	mapTags(ArrayList<com.compomics.util.experiment.identification.matches.SpectrumMatch> spectrumMatches, com.compomics.util.experiment.identification.protein_inference.FastaMapper fastaMapper, com.compomics.util.waiting.WaitingHandler waitingHandler) Maps the tags to the proteins in the sequence factory.

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

TagMapper

public TagMapper(com.compomics.util.parameters.identification.IdentificationParameters identificationParameters,
                 com.compomics.util.exceptions.ExceptionHandler exceptionHandler)

Constructor.

Parameters:

identificationParameters - the identification parameters

exceptionHandler - an exception handler

Method Detail

mapTags

public void mapTags(ArrayList<com.compomics.util.experiment.identification.matches.SpectrumMatch> spectrumMatches,
                    com.compomics.util.experiment.identification.protein_inference.FastaMapper fastaMapper,
                    com.compomics.util.waiting.WaitingHandler waitingHandler)

Maps the tags to the proteins in the sequence factory.

Parameters:

spectrumMatches - the spectrum matches containing the tags to map

fastaMapper - the FASTA mapper to use

waitingHandler - a waiting handler