Uses of Class
com.compomics.util.experiment.identification.peptide_shaker.Metrics
Package | Description |
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com.compomics.util.experiment.identification.features |
Classes for the generation of identification features.
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com.compomics.util.experiment.quantification.spectrumcounting |
Experiment classes related to spectrum counting.
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Uses of Metrics in com.compomics.util.experiment.identification.features
Methods in com.compomics.util.experiment.identification.features that return Metrics Modifier and Type Method Description Metrics
IdentificationFeaturesGenerator. getMetrics()
Returns the metrics.Methods in com.compomics.util.experiment.identification.features with parameters of type Metrics Modifier and Type Method Description double
IdentificationFeaturesGenerator. getNormalizedSpectrumCounting(long proteinMatchKey, Metrics metrics, UnitOfMeasurement unit, Double referenceMass, SpectrumCountingMethod method)
Returns the spectrum counting metric of the protein match of interest using the preference settings normalized to the injected protein amount.double
IdentificationFeaturesGenerator. getNormalizedSpectrumCounting(long proteinMatchKey, SpectrumCountingParameters spectrumCountingPreferences, Metrics metrics)
Returns the spectrum counting metric of the protein match of interest using the preference settings normalized to the injected protein amount using the given spectrum counting preferences.Constructors in com.compomics.util.experiment.identification.features with parameters of type Metrics Constructor Description IdentificationFeaturesGenerator(Identification identification, IdentificationParameters identificationParameters, SequenceProvider sequenceProvider, SpectrumProvider spectrumProvider, Metrics metrics, SpectrumCountingParameters spectrumCountingPreferences)
Constructor. -
Uses of Metrics in com.compomics.util.experiment.quantification.spectrumcounting
Methods in com.compomics.util.experiment.quantification.spectrumcounting with parameters of type Metrics Modifier and Type Method Description void
ScalingFactorsEstimators. estimateScalingFactors(Identification identification, Metrics metrics, SequenceProvider sequenceProvider, IdentificationFeaturesGenerator identificationFeaturesGenerator, WaitingHandler waitingHandler, ExceptionHandler exceptionHandler, ProcessingParameters processingParameters)
Estimates the scaling factors and stores them in the given metrics.