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Claude Skills by HolobiomicsLab
github.com/HolobiomicsLab4,372 skills13 installs12,718 views
- Word2vec Embedding Training Mass SpectrometryUse when you have a large collection of preprocessed MS/MS spectra (typicallyVotes: 0GitHub stars: 16
- Word2vec Model Inference Unknown Word HandlingUse when when applying a pre-trained Word2Vec model to mass spectra atVotes: 0GitHub stars: 16
- Word2vec Model TrainingUse when when you have a collection of mass spectra (e.Votes: 0GitHub stars: 16
- Word2vec Vocabulary Matching And Unknown Peak HandlingUse when converting MS/MS spectra into Spec2Vec embeddings using a pre-trainedVotes: 0GitHub stars: 16
- Workflow Architecture DocumentationUse when you need to understand how a complex MS/MS spectral search systemVotes: 0GitHub stars: 16
- Workflow Branching Logic DesignUse when when a spectral matching tool produces mixed output containingVotes: 0GitHub stars: 16
- Workflow Configuration And ParameterizationUse when when preparing to execute the Nextflow4MS-DIAL workflow on rawVotes: 0GitHub stars: 16
- Workflow Orchestration And ParallelizationUse when when you have a multi-step computational chemistry or molecularVotes: 0GitHub stars: 16
- Workflow Output Validation And QaUse when after executing a Nextflow-based MS-DIAL workflow on .mzML LC-HRMSVotes: 0GitHub stars: 16
- Workflow Pipeline Execution ValidationUse when you have prepared metabolomics input files (feature quantificationVotes: 0GitHub stars: 16
- Workflow Reproducibility ValidationUse when after implementing or deploying a containerized Nextflow workflowVotes: 0GitHub stars: 16
- Workflow Routing ConfigurationUse when when you have raw mass spectrometry data files from multipleVotes: 0GitHub stars: 16
- Workflow Status MonitoringUse when you need to verify that a GitHub Actions workflow (such as 'dev_build_release.Votes: 0GitHub stars: 16
- Wpf Gui CompilationUse when when you have cloned the MsdialWorkbench repository and needVotes: 0GitHub stars: 16
- Xcms Data Import PreprocessingUse when you have raw LC-MS or GC-MS data files from a mass spectrometerVotes: 0GitHub stars: 16
- Xcms Feature Extraction And GroupingUse when you have raw mzXML LC/MS files from replicated metabolomicsVotes: 0GitHub stars: 16
- Xcms Grouped Object ManipulationUse when you have preprocessed LC-MS data with detected chromatographicVotes: 0GitHub stars: 16
- Xcms Grouping Result InterpretationUse when xCMS grouping has been performed on LC-MS data from studiesVotes: 0GitHub stars: 16
- Xcms Object Handling And PreprocessingUse when you have raw gas or liquid chromatography–mass spectrometryVotes: 0GitHub stars: 16
- Xcms Output Replacement WorkflowUse when xCMS has produced aligned LC-MS features but alignment qualityVotes: 0GitHub stars: 16
- Xcms Parameter EstimationUse when you have raw untargeted metabolomics data (at least 3 samplesVotes: 0GitHub stars: 16
- Xcms Parameter Optimization MswUse when when you have direct-injection or low-complexity mass spectrometryVotes: 0GitHub stars: 16
- Xcms Profile ParsingUse when you have xcms-processed LC-MS data with detected feature groupsVotes: 0GitHub stars: 16
- Xcms Ramclustr Data Object IntegrationUse when when you have raw LC-MS all-ion fragmentation (AIF) chromatogramsVotes: 0GitHub stars: 16
- Xcms Ramclustr Object IntegrationUse when you have centroid-mode LC–MS all-ion fragmentation (AIF) dataVotes: 0GitHub stars: 16
- Xcms Workflow ExecutionUse when you have raw LC-MS data files (mzML, netCDF, or raw vendor formats)Votes: 0GitHub stars: 16
- Xenobiotic Metabolite Annotation From Ms MsUse when you have aligned MS/MS feature tables (e.g., from MSDial ver.Votes: 0GitHub stars: 16
- Xic Marker AnnotationUse when when you have a resolved spectrum file (mzML, mzXML) and needVotes: 0GitHub stars: 16
- Xml Element Parsing And Object SerializationUse when you have spectrum or chromatogram data stored as XML stringsVotes: 0GitHub stars: 16
- Xml Parsing And Element Tree SerializationUse when when spectrum or chromatogram data is stored as serialized XMLVotes: 0GitHub stars: 16
- Xml Spectrum Element DeserializationUse when when you have retrieved a decompressed XML data block from anVotes: 0GitHub stars: 16
- Xml Structured Metadata ConstructionUse when when you have synthesized or assembled mass spectrometry spectralVotes: 0GitHub stars: 16
- Y Ion Signal Detection And Noise AssessmentUse when you have extracted a centroided MS/MS spectrum from a ThermoVotes: 0GitHub stars: 16
- Yaml Configuration HandlingUse when when initializing a MolNotator project with user-defined parametersVotes: 0GitHub stars: 16
- Zero Value Handling In Mass Spectrometry DataUse when after feature detection has produced a feature table with zeroVotes: 0GitHub stars: 16
- RouterSearch the compact fixture collection, then apply and ground one skill.Votes: 0GitHub stars: 16
- Spectral Library MatchingMatch experimental spectra against reference libraries for untargeted annotation.Votes: 0GitHub stars: 16
- CalibrateUse when calibrating one astronomy instrument.Votes: 0GitHub stars: 16
- ImageUse when imaging one astronomy observation.Votes: 0GitHub stars: 16
- RouterUse when choosing among this unit's 2 evidence-grounded skills.Votes: 0GitHub stars: 16
- Asb AstronomyUse when applying the astronomy collection policy.Votes: 0GitHub stars: 16
- Asb ContributeUse when contributing feedback to the astronomy collection.Votes: 0GitHub stars: 16
- CalibrateUse when calibrating one radio astronomy instrument.Votes: 0GitHub stars: 16
- RouterUse when choosing this pack's 1 evidence-grounded skill.Votes: 0GitHub stars: 16
- 16s Amplicon Alignment To ReferenceAligns full-length (~1500 bp) 16S rRNA amplicon reads (e.g., PacBio CCS from human stool) to a reference 16S gene with Cross_match to tabulate per-position nucleotide substitution profiles that resolve intragenomic 16S gene copy variants at species/strain level.Votes: 0GitHub stars: 16
- Amplicon Sequence DenoisingComparative amplicon sequence denoising versus clustering: infer representative sequence variants (ASVs) from trimmed COI paired-end reads with error-model denoisers (DADA2, Deblur) or VSEARCH OTU clustering, then benchmark unexpected-sequence (error) rates against a biological mock community to judge which pipeline and low-abundance filtering regime best controls spurious ASVs.Votes: 0GitHub stars: 16
- Kruskal Wallis Group Comparison 4f3b5102cc625c23Non-parametric Kruskal–Wallis testing (with Dunn's post hoc tests) to determine whether per-sample Hill-number alpha diversity (observed richness, Shannon's Entropy, Simpson's Index) differs among denoising pipelines (DADA2, Deblur, VSEARCH) across basic, standard, and extra filtering regimes on bat guano COI metabarcoding data.Votes: 0GitHub stars: 16
- Chromatographic AlignmentAlign chromatographic peaks across LC-MS samples with retention-time correction.Votes: 0GitHub stars: 16
- Formula PredictionPredict molecular formula candidates from tandem mass spectra.Votes: 0GitHub stars: 16
- Gcms DeconvolutionDeconvolute gas chromatography mass spectra into component peaks.Votes: 0GitHub stars: 16