Uses of Class
com.compomics.util.parameters.quantification.spectrum_counting.SpectrumCountingParameters
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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com.compomics.util.parameters.quantification.spectrum_counting |
Spectrum counting parameters.
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Uses of SpectrumCountingParameters in com.compomics.util.experiment.identification.features
Methods in com.compomics.util.experiment.identification.features with parameters of type SpectrumCountingParameters Modifier and Type Method Description static double
IdentificationFeaturesGenerator. estimateSpectrumCounting(Identification identification, SequenceProvider sequenceProvider, long proteinMatchKey, SpectrumCountingParameters spectrumCountingPreferences, int maxPepLength, IdentificationParameters identificationParameters)
Returns the spectrum counting index based on the project settings.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.void
IdentificationFeaturesGenerator. setSpectrumCountingPreferences(SpectrumCountingParameters spectrumCountingPreferences)
Sets the spectrum counting preferences.Constructors in com.compomics.util.experiment.identification.features with parameters of type SpectrumCountingParameters Constructor Description IdentificationFeaturesGenerator(Identification identification, IdentificationParameters identificationParameters, SequenceProvider sequenceProvider, SpectrumProvider spectrumProvider, Metrics metrics, SpectrumCountingParameters spectrumCountingPreferences)
Constructor. -
Uses of SpectrumCountingParameters in com.compomics.util.experiment.quantification.spectrumcounting
Constructors in com.compomics.util.experiment.quantification.spectrumcounting with parameters of type SpectrumCountingParameters Constructor Description ScalingFactorsEstimators(SpectrumCountingParameters spectrumCountingParameters)
Constructor. -
Uses of SpectrumCountingParameters in com.compomics.util.parameters.quantification.spectrum_counting
Methods in com.compomics.util.parameters.quantification.spectrum_counting with parameters of type SpectrumCountingParameters Modifier and Type Method Description boolean
SpectrumCountingParameters. isSameAs(SpectrumCountingParameters anotherSpectrumCountingPreferences)
Compares two spectrum counting preferences.Constructors in com.compomics.util.parameters.quantification.spectrum_counting with parameters of type SpectrumCountingParameters Constructor Description SpectrumCountingParameters(SpectrumCountingParameters otherSpectrumCountingPreferences)
Creates new preferences based on other spectrum counting preferences.