Uses of Class
eu.isas.reporter.quantificationdetails.ProteinPtmQuantificationDetails

Packages that use ProteinPtmQuantificationDetails

Package	Description
eu.isas.reporter	Main package.
eu.isas.reporter.calculation	Package containing classes used for the calculation.

Uses of ProteinPtmQuantificationDetails in eu.isas.reporter

Methods in eu.isas.reporter that return ProteinPtmQuantificationDetails

Modifier and Type	Method	Description
static ProteinPtmQuantificationDetails	Reporter.estimatePTMQuantificationDetails(com.compomics.util.experiment.identification.Identification identification, com.compomics.util.experiment.mass_spectrometry.SpectrumProvider spectrumProvider, QuantificationFeaturesGenerator quantificationFeaturesGenerator, RatioEstimationSettings ratioEstimationSettings, com.compomics.util.experiment.quantification.reporterion.ReporterIonQuantification reporterIonQuantification, com.compomics.util.parameters.identification.search.SearchParameters searchParameters, com.compomics.util.parameters.identification.advanced.SequenceMatchingParameters sequenceMatchingParameters, String ptmName, long matchKey, int site, com.compomics.util.waiting.WaitingHandler waitingHandler)	Returns the quantification details of a PTM on a protein.//@TODO: discriminate peptides according to the neighboring sites?

Uses of ProteinPtmQuantificationDetails in eu.isas.reporter.calculation

Methods in eu.isas.reporter.calculation that return ProteinPtmQuantificationDetails

Modifier and Type	Method	Description
ProteinPtmQuantificationDetails	QuantificationFeaturesCache.getPtmQuantificationDetails(String ptmName, long matchKey, int site)	Returns protein level PTM quantification details, null if not in cache.
ProteinPtmQuantificationDetails	QuantificationFeaturesGenerator.getPTMQuantificationDetails(com.compomics.util.experiment.mass_spectrometry.SpectrumProvider spectrumProvider, String ptmName, long matchKey, int site, com.compomics.util.waiting.WaitingHandler waitingHandler)	Returns the quantification details of a PTM.

Methods in eu.isas.reporter.calculation with parameters of type ProteinPtmQuantificationDetails

Modifier and Type	Method	Description
void	QuantificationFeaturesCache.addPtmQuantificationDetails(String ptmName, long matchKey, int site, ProteinPtmQuantificationDetails matchQuantificationDetails)	Adds protein level PTM quantification details to the cache.