Examples of showAnnotatedPeaksOnly()

Examples of com.compomics.util.gui.spectrum.SpectrumPanel.showAnnotatedPeaksOnly()

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                                                currentSpectrum.getIntensityLimit(annotationPreferences.getAnnotationIntensityLimit()),
                                                annotationPreferences.getFragmentIonAccuracy(), false, annotationPreferences.isHighResolutionAnnotation());

                                        // add the spectrum annotations
                                        tempSpectrumPanel.setAnnotations(SpectrumAnnotator.getSpectrumAnnotation(annotations));
                                        tempSpectrumPanel.showAnnotatedPeaksOnly(!annotationPreferences.showAllPeaks());
                                        tempSpectrumPanel.setYAxisZoomExcludesBackgroundPeaks(annotationPreferences.yAxisZoomExcludesBackgroundPeaks());

                                        // add de novo sequencing
                                        tempSpectrumPanel.addAutomaticDeNovoSequencing(peptide, annotations,
                                                forwardIon, rewindIon, annotationPreferences.getDeNovoCharge(),
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Examples of com.compomics.util.gui.spectrum.SpectrumPanel.showAnnotatedPeaksOnly()

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                                                annotationPreferences.getFragmentIonAccuracy(),
                                                false, annotationPreferences.isHighResolutionAnnotation());

                                        // add the spectrum annotations
                                        tempSpectrumPanel.setAnnotations(SpectrumAnnotator.getSpectrumAnnotation(annotations));
                                        tempSpectrumPanel.showAnnotatedPeaksOnly(!annotationPreferences.showAllPeaks());
                                        tempSpectrumPanel.setYAxisZoomExcludesBackgroundPeaks(annotationPreferences.yAxisZoomExcludesBackgroundPeaks());

                                        // add de novo sequencing
                                        tempSpectrumPanel.addAutomaticDeNovoSequencing(tagAssumption.getTag(), annotations,
                                                forwardIon, rewindIon, annotationPreferences.getDeNovoCharge(),
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