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Claude Skills by HolobiomicsLab
github.com/HolobiomicsLab4,372 skills13 installs12,718 views
- Dda Spectrum Association To FeaturesUse when you have centroided DDA mzML data and have already detectedVotes: 0GitHub stars: 16
- De Novo Mass Spectrum InterpretationUse when you have MS/MS spectra (centroided m/z and intensity pairs)Votes: 0GitHub stars: 16
- De Novo Peptide SequencingUse when you have annotated MS/MS spectra in MGF format and need to identifyVotes: 0GitHub stars: 16
- De Novo Precursor Mass AnnotationUse when when you have unknown MS/MS spectra with observed precursorVotes: 0GitHub stars: 16
- De Novo Structure Candidate RankingUse when when you have high-resolution LC-MS/MS data for an unknown metaboliteVotes: 0GitHub stars: 16
- Decision Tree Path ExtractionUse when you have a trained shallow decision tree on ChemEcho featureVotes: 0GitHub stars: 16
- Decision Tree Training And InterpretationUse when you have tandem mass spectra data and need to predict a discreteVotes: 0GitHub stars: 16
- Deconvolved Spectrum ComparisonUse when after auto-deconvolution of GC-MS data has produced a tableVotes: 0GitHub stars: 16
- Decoy Database Generation For MetabolomicsUse when performing large-scale untargeted metabolomics annotation whereVotes: 0GitHub stars: 16
- Deep Learning Architecture ImplementationUse when you have two augmented versions of the same ion image (fromVotes: 0GitHub stars: 16
- Deep Learning Feature ExtractionUse when you have preprocessed and normalized LC-MS metabolomics dataVotes: 0GitHub stars: 16
- Deep Learning Metabolite AnnotationUse when you have UPLC-HRMS data (ThermoFisher, Agilent, or MSConvert-compatibleVotes: 0GitHub stars: 16
- Deep Learning Model Architecture DesignUse when you have extracted molecular features (voxel projected areas,Votes: 0GitHub stars: 16
- Deep Learning Model AssemblyUse when you have transformer encoder components and a prediction headVotes: 0GitHub stars: 16
- Deep Learning Model Checkpoint LoadingUse when when you have MS/MS spectra from GNPS or other libraries andVotes: 0GitHub stars: 16
- Deep Learning Model EvaluationUse when after training a Siamese neural network on MS/MS spectrum pairs,Votes: 0GitHub stars: 16
- Deep Learning Model Implementation In Pytorch Or TensorflowUse when when you need to construct a dual-branch neural network encoderVotes: 0GitHub stars: 16
- Deep Learning Model Inference And Ensemble PredictionUse when you have a trained deep learning model and want to quantifyVotes: 0GitHub stars: 16
- Deep Learning Model Inference On Test Sets'Use when you have a pretrained deep learning model, a reserved testVotes: 0GitHub stars: 16
- Deep Learning Model InferenceUse when you have preprocessed mass spectrometry spectra (tokenized m/zVotes: 0GitHub stars: 16
- Deep Learning Model InitializationUse when you have downloaded the LC-MS spectral peak dataset (DOI 10.25345/C5FD2F)Votes: 0GitHub stars: 16
- Deep Learning Model Layer CompositionUse when you have unpaired mass spectrometry spectra and need to predictVotes: 0GitHub stars: 16
- Deep Learning Model Loading And PredictionUse when when you have preprocessed MS/MS spectral data (normalized peakVotes: 0GitHub stars: 16
- Deep Learning Model Training And InferenceUse when you have paired tandem MS/MS spectra with known molecular fingerprints,Votes: 0GitHub stars: 16
- Deep Learning Model Training And ValidationUse when you have paired mass-spectrometry spectral data (m/z and intensityVotes: 0GitHub stars: 16
- Deep Learning Model Training With MonitoringUse when you have a pre-trained deep learning encoder (e.g., TCN spectrumVotes: 0GitHub stars: 16
- Deep Learning Model TrainingUse when you have raw or preprocessed mass spectrometry feature matricesVotes: 0GitHub stars: 16
- Deep Learning Signal Inference With OnnxUse when when you have a TransitionGroup structure containing normalizedVotes: 0GitHub stars: 16
- Deep Learning Spectral Language ModelUse when when you have an unknown compound's mass spectrum (m/z peaksVotes: 0GitHub stars: 16
- Deep Learning Training Convergence MonitoringUse when training a CNN model from scratch on LCMS peak classificationVotes: 0GitHub stars: 16
- Deletion Reason Logging And TraceabilityUse when when processing OMSLs (Open Mass Spectra Libraries) with heterogeneousVotes: 0GitHub stars: 16
- Dense Neural Network Layer ConstructionUse when when you have a binned MS/MS spectrum vector (e.g., 9948-dimensionalVotes: 0GitHub stars: 16
- Dependency Manifest ExtractionUse when a bioinformatics package claims to install a large number ofVotes: 0GitHub stars: 16
- Dependency Requirement ValidationUse when before launching the DaDIA pipeline or any multi-package R workflowVotes: 0GitHub stars: 16
- Dependency Version ManagementUse when when you need to document or reproduce a Python-based researchVotes: 0GitHub stars: 16
- Dependency Version Parsing'Use when before launching a multi-tool computational workflow (e.g.,Votes: 0GitHub stars: 16
- Dereplication Candidate FilteringUse when after spectral database dereplication (using Spectra) and compoundVotes: 0GitHub stars: 16
- Derivatization Chemistry EnumerationUse when when performing metabolite identification in mass spectrometryVotes: 0GitHub stars: 16
- Derivatizing Matrix ConfigurationUse when you have a derivatizing matrix (e.g., TAHS or other publiclyVotes: 0GitHub stars: 16
- Derivatizing Matrix Ionization Rule ApplicationUse when when working with mass spectrometry imaging data from metabolitesVotes: 0GitHub stars: 16
- Detection Limit Threshold DefinitionUse when when preparing metabolomics abundance tables with left-censoredVotes: 0GitHub stars: 16
- Detection Network Output ParsingUse when you have raw LC-MS data in mzML format with regions of interestVotes: 0GitHub stars: 16
- Dia Data Format RecognitionUse when you have raw mass spectrometry data from a DIA acquisition methodVotes: 0GitHub stars: 16
- Dia File Format ParsingUse when you have raw DIA mass spectrometry files in timsTOF (.d), TripleTOFVotes: 0GitHub stars: 16
- Dia File Quality PredictionUse when you have a batch of DIA mass spectrometry raw files (.raw, .d,Votes: 0GitHub stars: 16
- Diagnostic Fragment AnnotationUse when when you have centroided, data-dependent acquisition (ddMS2)Votes: 0GitHub stars: 16
- Diagnostic Quality Assessment Of Chromatographic PeaksUse when after running targeted peak detection in TARDIS (screening_modeVotes: 0GitHub stars: 16
- Difference Count Table IntegrationUse when when analyzing tandem MS/MS spectra with SIMILE V2 and you wantVotes: 0GitHub stars: 16
- Differential Metabolite DetectionUse when you have normalized and aligned lipidomic and metabolomic spectralVotes: 0GitHub stars: 16
- Differential Peak Abundance DetectionUse when after raw mass spectrometry data has been converted to a peakVotes: 0GitHub stars: 16