Uses of Package
com.compomics.util.experiment.identification.spectrum_annotation

Packages that use com.compomics.util.experiment.identification.spectrum_annotation

Package	Description
com.compomics.util.experiment.biology	Experiment classes related to biological entities.
com.compomics.util.experiment.identification.matches	Experiment classes related to matches.
com.compomics.util.experiment.identification.psm_scoring	Main PSM scoring class.
com.compomics.util.experiment.identification.psm_scoring.psm_scores	Main PTM scoring classes.
com.compomics.util.experiment.identification.ptm	Additional PSM scoring classes.
com.compomics.util.experiment.identification.ptm.ptmscores	PTM scores.
com.compomics.util.experiment.identification.spectrum_annotation	Classes used for ms2 spectrum annotation.
com.compomics.util.experiment.identification.spectrum_annotation.spectrum_annotators	Spectrum annotation.
com.compomics.util.gui.parameters.identification_parameters	GUI classes for parameters, settings and preferences used for identification.
com.compomics.util.gui.spectrum	Spectrum and Chromatogram visualization GUI classes.
com.compomics.util.preferences	Utilities preferences classes.

Classes in com.compomics.util.experiment.identification.spectrum_annotation used by com.compomics.util.experiment.biology

Class and Description
SpecificAnnotationSettings The spectrum annotation preferences specific to a spectrum and an identification assumption.

Classes in com.compomics.util.experiment.identification.spectrum_annotation used by com.compomics.util.experiment.identification.matches

Class and Description
IonMatchKeysCache Cache for the keys of the ions.

Classes in com.compomics.util.experiment.identification.spectrum_annotation used by com.compomics.util.experiment.identification.psm_scoring

Class and Description
SpecificAnnotationSettings The spectrum annotation preferences specific to a spectrum and an identification assumption.

Classes in com.compomics.util.experiment.identification.spectrum_annotation used by com.compomics.util.experiment.identification.psm_scoring.psm_scores

Class and Description
AnnotationSettings This class contains the spectrum annotation preferences.
SpecificAnnotationSettings The spectrum annotation preferences specific to a spectrum and an identification assumption.

Classes in com.compomics.util.experiment.identification.spectrum_annotation used by com.compomics.util.experiment.identification.ptm

Class and Description
AnnotationSettings This class contains the spectrum annotation preferences.
SpecificAnnotationSettings The spectrum annotation preferences specific to a spectrum and an identification assumption.

Classes in com.compomics.util.experiment.identification.spectrum_annotation used by com.compomics.util.experiment.identification.ptm.ptmscores

Class and Description
AnnotationSettings This class contains the spectrum annotation preferences.
SpecificAnnotationSettings The spectrum annotation preferences specific to a spectrum and an identification assumption.

Classes in com.compomics.util.experiment.identification.spectrum_annotation used by com.compomics.util.experiment.identification.spectrum_annotation

Class and Description
AnnotationSettings This class contains the spectrum annotation preferences.
IonMatchKeysCache Cache for the keys of the ions.
NeutralLossesMap This class contains the informations relative to the accounting of neutral losses
SpecificAnnotationSettings The spectrum annotation preferences specific to a spectrum and an identification assumption.

Classes in com.compomics.util.experiment.identification.spectrum_annotation used by com.compomics.util.experiment.identification.spectrum_annotation.spectrum_annotators

Class and Description
AnnotationSettings This class contains the spectrum annotation preferences.
NeutralLossesMap This class contains the informations relative to the accounting of neutral losses
SpecificAnnotationSettings The spectrum annotation preferences specific to a spectrum and an identification assumption.
SpectrumAnnotator The spectrum annotator annotates peaks in a spectrum.

Classes in com.compomics.util.experiment.identification.spectrum_annotation used by com.compomics.util.gui.parameters.identification_parameters

Class and Description
AnnotationSettings This class contains the spectrum annotation preferences.

Classes in com.compomics.util.experiment.identification.spectrum_annotation used by com.compomics.util.gui.spectrum

Class and Description
NeutralLossesMap This class contains the informations relative to the accounting of neutral losses

Classes in com.compomics.util.experiment.identification.spectrum_annotation used by com.compomics.util.preferences

Class and Description
AnnotationSettings This class contains the spectrum annotation preferences.