Mercurial > repos > galaxyp > openms_xfdr
view tool.conf @ 3:0fb75f784e2d draft
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5-dirty
author | galaxyp |
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date | Fri, 17 May 2019 10:00:41 -0400 |
parents | b19847e8f0a1 |
children |
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<?xml version='1.0' encoding='UTF-8'?> <toolbox> <section id="section-id-Peptidepropertyprediction" name="Peptide property prediction"> <tool file="openms/PTModel.xml"/> <tool file="openms/PTPredict.xml"/> <tool file="openms/RTModel.xml"/> <tool file="openms/RTPredict.xml"/> </section> <section id="section-id-TargetedExperiments" name="Targeted Experiments"> <tool file="openms/InclusionExclusionListCreator.xml"/> <tool file="openms/MRMMapper.xml"/> <tool file="openms/OpenSwathAnalyzer.xml"/> <tool file="openms/OpenSwathAssayGenerator.xml"/> <tool file="openms/OpenSwathChromatogramExtractor.xml"/> <tool file="openms/OpenSwathConfidenceScoring.xml"/> <tool file="openms/OpenSwathDecoyGenerator.xml"/> <tool file="openms/OpenSwathDIAPreScoring.xml"/> <tool file="openms/OpenSwathFeatureXMLToTSV.xml"/> <tool file="openms/OpenSwathFileSplitter.xml"/> <tool file="openms/OpenSwathMzMLFileCacher.xml"/> <tool file="openms/OpenSwathRewriteToFeatureXML.xml"/> <tool file="openms/OpenSwathRTNormalizer.xml"/> <tool file="openms/PrecursorIonSelector.xml"/> <tool file="openms/TargetedFileConverter.xml"/> </section> <section id="section-id-Utilities" name="Utilities"> <tool file="openms/AccurateMassSearch.xml"/> <tool file="openms/CVInspector.xml"/> <tool file="openms/DatabaseFilter.xml"/> <tool file="openms/DecoyDatabase.xml"/> <tool file="openms/DeMeanderize.xml"/> <tool file="openms/Digestor.xml"/> <tool file="openms/DigestorMotif.xml"/> <tool file="openms/ERPairFinder.xml"/> <tool file="openms/FFEval.xml"/> <tool file="openms/FuzzyDiff.xml"/> <tool file="openms/IDDecoyProbability.xml"/> <tool file="openms/IDExtractor.xml"/> <tool file="openms/IDMassAccuracy.xml"/> <tool file="openms/IDScoreSwitcher.xml"/> <tool file="openms/IDSplitter.xml"/> <tool file="openms/LabeledEval.xml"/> <tool file="openms/LowMemPeakPickerHiRes.xml"/> <tool file="openms/LowMemPeakPickerHiRes_RandomAccess.xml"/> <tool file="openms/MassCalculator.xml"/> <tool file="openms/MetaboliteSpectralMatcher.xml"/> <tool file="openms/MetaProSIP.xml"/> <tool file="openms/MRMPairFinder.xml"/> <tool file="openms/MRMTransitionGroupPicker.xml"/> <tool file="openms/MSSimulator.xml"/> <tool file="openms/MultiplexResolver.xml"/> <tool file="openms/MzMLSplitter.xml"/> <tool file="openms/OpenSwathWorkflow.xml"/> <tool file="openms/QCCalculator.xml"/> <tool file="openms/QCEmbedder.xml"/> <tool file="openms/QCExporter.xml"/> <tool file="openms/QCExtractor.xml"/> <tool file="openms/QCImporter.xml"/> <tool file="openms/QCMerger.xml"/> <tool file="openms/QCShrinker.xml"/> <tool file="openms/RNPxl.xml"/> <tool file="openms/RNPxlSearch.xml"/> <tool file="openms/RNPxlXICFilter.xml"/> <tool file="openms/RTEvaluation.xml"/> <tool file="openms/SemanticValidator.xml"/> <tool file="openms/SequenceCoverageCalculator.xml"/> <tool file="openms/SimpleSearchEngine.xml"/> <tool file="openms/SpecLibCreator.xml"/> <tool file="openms/SpectraSTSearchAdapter.xml"/> <tool file="openms/SvmTheoreticalSpectrumGeneratorTrainer.xml"/> <tool file="openms/TICCalculator.xml"/> <tool file="openms/TopPerc.xml"/> <tool file="openms/TransformationEvaluation.xml"/> <tool file="openms/XMLValidator.xml"/> </section> <section id="section-id-MapAlignment" name="Map Alignment"> <tool file="openms/ConsensusMapNormalizer.xml"/> <tool file="openms/FeatureLinkerLabeled.xml"/> <tool file="openms/FeatureLinkerUnlabeled.xml"/> <tool file="openms/FeatureLinkerUnlabeledKD.xml"/> <tool file="openms/FeatureLinkerUnlabeledQT.xml"/> <tool file="openms/MapRTTransformer.xml"/> </section> <section id="section-id-IDProcessing" name="ID Processing"> <tool file="openms/ConsensusID.xml"/> <tool file="openms/FalseDiscoveryRate.xml"/> <tool file="openms/FidoAdapter.xml"/> <tool file="openms/IDConflictResolver.xml"/> <tool file="openms/IDFileConverter.xml"/> <tool file="openms/IDFilter.xml"/> <tool file="openms/IDMapper.xml"/> <tool file="openms/IDPosteriorErrorProbability.xml"/> <tool file="openms/IDRTCalibration.xml"/> <tool file="openms/LuciphorAdapter.xml"/> <tool file="openms/PeptideIndexer.xml"/> <tool file="openms/PhosphoScoring.xml"/> </section> <section id="section-id-Signalprocessingandpreprocessing" name="Signal processing and preprocessing"> <tool file="openms/BaselineFilter.xml"/> <tool file="openms/ExternalCalibration.xml"/> <tool file="openms/HighResPrecursorMassCorrector.xml"/> <tool file="openms/InternalCalibration.xml"/> <tool file="openms/MapNormalizer.xml"/> <tool file="openms/MassTraceExtractor.xml"/> <tool file="openms/NoiseFilterGaussian.xml"/> <tool file="openms/NoiseFilterSGolay.xml"/> <tool file="openms/PeakPickerHiRes.xml"/> <tool file="openms/PeakPickerIterative.xml"/> <tool file="openms/PeakPickerWavelet.xml"/> <tool file="openms/PrecursorMassCorrector.xml"/> <tool file="openms/SpectraMerger.xml"/> <tool file="openms/TOFCalibration.xml"/> </section> <section id="section-id-Identification" name="Identification"> <tool file="openms/CompNovoCID.xml"/> <tool file="openms/CompNovo.xml"/> <tool file="openms/InspectAdapter.xml"/> <tool file="openms/MascotAdapter.xml"/> <tool file="openms/MascotAdapterOnline.xml"/> <tool file="openms/MSGFPlusAdapter.xml"/> <tool file="openms/ProteinInference.xml"/> <tool file="openms/SpectraFilterBernNorm.xml"/> <tool file="openms/SpectraFilterMarkerMower.xml"/> <tool file="openms/SpectraFilterNLargest.xml"/> <tool file="openms/SpectraFilterNormalizer.xml"/> <tool file="openms/SpectraFilterParentPeakMower.xml"/> <tool file="openms/SpectraFilterScaler.xml"/> <tool file="openms/SpectraFilterSqrtMower.xml"/> <tool file="openms/SpectraFilterThresholdMower.xml"/> <tool file="openms/SpectraFilterWindowMower.xml"/> <tool file="openms/XTandemAdapter.xml"/> </section> <section id="section-id-FileHandling" name="File Handling"> <tool file="openms/DTAExtractor.xml"/> <tool file="openms/FileConverter.xml"/> <tool file="openms/FileFilter.xml"/> <tool file="openms/FileInfo.xml"/> <tool file="openms/FileMerger.xml"/> <tool file="openms/IDMerger.xml"/> <tool file="openms/IDRipper.xml"/> <tool file="openms/MapStatistics.xml"/> <tool file="openms/MzTabExporter.xml"/> <tool file="openms/TextExporter.xml"/> </section> <section id="section-id-Quantitation" name="Quantitation"> <tool file="openms/AdditiveSeries.xml"/> <tool file="openms/Decharger.xml"/> <tool file="openms/EICExtractor.xml"/> <tool file="openms/FeatureFinderCentroided.xml"/> <tool file="openms/FeatureFinderIdentification.xml"/> <tool file="openms/FeatureFinderIsotopeWavelet.xml"/> <tool file="openms/FeatureFinderMetabo.xml"/> <tool file="openms/FeatureFinderMRM.xml"/> <tool file="openms/FeatureFinderMultiplex.xml"/> <tool file="openms/FeatureFinderSuperHirn.xml"/> <tool file="openms/IsobaricAnalyzer.xml"/> <tool file="openms/ProteinQuantifier.xml"/> <tool file="openms/ProteinResolver.xml"/> </section> </toolbox>