Uses of Class
com.compomics.util.experiment.mass_spectrometry.spectra.Precursor
Package | Description |
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com.compomics.util.experiment.identification.psm_scoring.psm_scores |
Main PTM scoring classes.
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com.compomics.util.experiment.io.mass_spectrometry |
Classes for the handling of mass spectrometry files.
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com.compomics.util.experiment.io.mass_spectrometry.cms |
Classes for the handling of Compomics mass spectrometry (cms) files.
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com.compomics.util.experiment.io.mass_spectrometry.mgf |
Classes for the handling of mgf files.
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com.compomics.util.experiment.mass_spectrometry |
Experiment classes related to mass spectrometry.
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com.compomics.util.experiment.mass_spectrometry.indexes |
Classes related to the indexing of spectra.
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com.compomics.util.experiment.mass_spectrometry.spectra |
Experiment classes related to spectra.
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Uses of Precursor in com.compomics.util.experiment.identification.psm_scoring.psm_scores
Methods in com.compomics.util.experiment.identification.psm_scoring.psm_scores with parameters of type Precursor Modifier and Type Method Description double
PrecursorAccuracy. getScore(Peptide peptide, int identificationCharge, Precursor precursor, boolean ppm, int minIsotope, int maxIsotope)
Scores the match between the given peptide and spectrum using the precursor m/z accuracy. -
Uses of Precursor in com.compomics.util.experiment.io.mass_spectrometry
Methods in com.compomics.util.experiment.io.mass_spectrometry that return Precursor Modifier and Type Method Description Precursor
MsFileHandler. getPrecursor(String fileNameWithoutExtension, String spectrumTitle)
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Uses of Precursor in com.compomics.util.experiment.io.mass_spectrometry.cms
Methods in com.compomics.util.experiment.io.mass_spectrometry.cms that return Precursor Modifier and Type Method Description Precursor
CmsFileReader. getPrecursor(String spectrumTitle)
Returns the precursor of the spectrum with the given title.Precursor
CmsFileReader. getPrecursor(String fileName, String spectrumTitle)
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Uses of Precursor in com.compomics.util.experiment.io.mass_spectrometry.mgf
Methods in com.compomics.util.experiment.io.mass_spectrometry.mgf that return Precursor Modifier and Type Method Description static Precursor
IndexedMgfReader. getPrecursor(uk.ac.ebi.pride.tools.braf.BufferedRandomAccessFile bufferedRandomAccessFile, long index, String fileName)
Returns the next precursor starting from the given index. -
Uses of Precursor in com.compomics.util.experiment.mass_spectrometry
Methods in com.compomics.util.experiment.mass_spectrometry that return Precursor Modifier and Type Method Description Precursor
SpectrumProvider. getPrecursor(String fileNameWithoutExtension, String spectrumTitle)
Returns the precursor. -
Uses of Precursor in com.compomics.util.experiment.mass_spectrometry.indexes
Fields in com.compomics.util.experiment.mass_spectrometry.indexes declared as Precursor Modifier and Type Field Description Precursor
PrecursorMap.PrecursorWithTitle. precursor
The precursorConstructors in com.compomics.util.experiment.mass_spectrometry.indexes with parameters of type Precursor Constructor Description PrecursorWithTitle(Precursor precursor, String spectrumTitle)
Constructor.Constructor parameters in com.compomics.util.experiment.mass_spectrometry.indexes with type arguments of type Precursor Constructor Description PrecursorMap(HashMap<String,Precursor> precursors, double precursorTolerance, boolean ppm)
Builds a precursor map. -
Uses of Precursor in com.compomics.util.experiment.mass_spectrometry.spectra
Fields in com.compomics.util.experiment.mass_spectrometry.spectra declared as Precursor Modifier and Type Field Description Precursor
Spectrum. precursor
The precursor if any.Methods in com.compomics.util.experiment.mass_spectrometry.spectra that return Precursor Modifier and Type Method Description Precursor
Spectrum. getPrecursor()
Returns the precursor.static Precursor
RecalibrationUtils. getRecalibratedPrecursor(Precursor precursor, double mzCorrection, double rtCorrection)
Returns a recalibrated precursor.Methods in com.compomics.util.experiment.mass_spectrometry.spectra with parameters of type Precursor Modifier and Type Method Description static Precursor
RecalibrationUtils. getRecalibratedPrecursor(Precursor precursor, double mzCorrection, double rtCorrection)
Returns a recalibrated precursor.boolean
Precursor. isSameAs(Precursor otherPrecursor)
Returns a boolean indicating whether the precursor is identical to the other precursor.Constructors in com.compomics.util.experiment.mass_spectrometry.spectra with parameters of type Precursor Constructor Description Spectrum(Precursor precursor, double[] mz, double[] intensities)
Constructor.