Package | Description |
---|---|
com.compomics.util.experiment.identification.spectrum_annotation |
Classes used for ms2 spectrum annotation.
|
com.compomics.util.gui.spectrum |
Spectrum and Chromatogram visualization GUI classes.
|
Modifier and Type | Method and Description |
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static Vector<SpectrumAnnotation> |
SpectrumAnnotator.getSpectrumAnnotation(ArrayList<IonMatch> ionMatches)
Translates the list of ion matches into a vector of annotations which can
be read by the SpectrumPanel.
|
Modifier and Type | Class and Description |
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class |
DefaultSpectrumAnnotation
This class provides a default implementation of the SpectrumAnnotation interface.
|
Modifier and Type | Method and Description |
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static Vector<SpectrumAnnotation> |
SpectrumPanel.filterAnnotations(Vector<SpectrumAnnotation> annotations,
HashMap<Ion.IonType,ArrayList<Integer>> iontypes,
ArrayList<NeutralLoss> neutralLosses,
boolean singleChargeSelected,
boolean doubleChargeSelected,
boolean moreThanTwoChargesSelected)
Deprecated.
don't use method based on the peak labels but on the data
type
|
Modifier and Type | Method and Description |
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protected void |
GraphicsPanel.annotate(SpectrumAnnotation aSA,
Graphics g,
HashMap<String,Integer> aAlreadyAnnotated,
boolean mirrored)
This method attempts to find the specified SpectrumAnnotation in the
current peak list and if so, annotates it correspondingly on the screen.
|
Modifier and Type | Method and Description |
---|---|
static Vector<SpectrumAnnotation> |
SpectrumPanel.filterAnnotations(Vector<SpectrumAnnotation> annotations,
HashMap<Ion.IonType,ArrayList<Integer>> iontypes,
ArrayList<NeutralLoss> neutralLosses,
boolean singleChargeSelected,
boolean doubleChargeSelected,
boolean moreThanTwoChargesSelected)
Deprecated.
don't use method based on the peak labels but on the data
type
|
void |
GraphicsPanel.setAnnotations(List<SpectrumAnnotation> aAnnotations)
This method sets all the annotations on this instance.
|
void |
GraphicsPanel.setAnnotations(List<SpectrumAnnotation> aAnnotations,
boolean annotateHighestPeak)
This method sets all the annotations on this instance.
|
void |
GraphicsPanel.setAnnotationsMirrored(List<SpectrumAnnotation> aAnnotations)
This method sets all the annotations for the mirrored spectra.
|
void |
GraphicsPanel.setAnnotationsMirrored(List<SpectrumAnnotation> aAnnotations,
boolean annotateHighestPeak)
This method sets all the annotations for the mirrored spectra.
|
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