Examples of com.compomics.util.experiment.identification.SpectrumIdentificationAssumption

                        totalPeptideShakerIds++;
                        numberOfValidatedPsms++;


                        for (Integer tempAdvocate : advocatesUsed) {
                            if (spectrumMatch.getFirstHit(tempAdvocate) != null) {
                                SpectrumIdentificationAssumption firstHit = spectrumMatch.getFirstHit(tempAdvocate);
                                if ((firstHit instanceof PeptideAssumption) && ((PeptideAssumption) firstHit).getPeptide().isSameSequenceAndModificationStatus(spectrumMatch.getBestPeptideAssumption().getPeptide(),
                                        peptideShakerGUI.getSequenceMatchingPreferences())) {
                                    currentAdvocates.add(tempAdvocate);
                                }
                            }

                    if (currentSpectrum != null && tempSpectrumPanel != null) {


                        if (currentSpectrum.getMzValuesAsArray().length > 0 && currentSpectrum.getIntensityValuesAsArray().length > 0) {


                            if (searchResultsTable.getSelectedRow() != -1) {
                                SpectrumIdentificationAssumption currentAssumption = currentAssumptionsList.get(searchResultsTable.getSelectedRow());


                                if (currentAssumption != null) {
                                    currentSpectrumKey = spectrumMatch.getKey();
                                    if (currentAssumption instanceof PeptideAssumption) {
                                        PeptideAssumption currentPeptideAssumption = (PeptideAssumption) currentAssumption;

Related Classes of com.compomics.util.experiment.identification.SpectrumIdentificationAssumption

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