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Claude Skills by HolobiomicsLab
github.com/HolobiomicsLab4,372 skills13 installs12,718 views
- Metabolomics Scan Metadata LinkingUse when after running a ViMMS Environment simulation with save_evalVotes: 0GitHub stars: 16
- Metabolomics Software BenchmarkingUse when you have completed peak picking with two or more competing toolsVotes: 0GitHub stars: 16
- Metabolomics Tool DeploymentUse when you have a Galaxy installation (specifically Galaxy Master branchVotes: 0GitHub stars: 16
- Metabolomics Training Set PreparationUse when when you have LC-MS/MS acquisitions in DDA mode and need toVotes: 0GitHub stars: 16
- Metabolomics Workflow Step EnumerationUse when when initializing a SmartPeak session and you have a workflow.csvVotes: 0GitHub stars: 16
- Metaboset Object ManipulationUse when when you have read LC-MS peak table data from Excel (or equivalent)Votes: 0GitHub stars: 16
- Metadata Annotation IntegrationUse when you have chemical annotations (GNPS spectral library matches)Votes: 0GitHub stars: 16
- Metadata Batch Assignment VerificationUse when after data merging and before applying batch correction algorithmsVotes: 0GitHub stars: 16
- Metadata Coldata IntegrationUse when when you have generated a feature abundance matrix from mzrtsim()Votes: 0GitHub stars: 16
- Metadata Column Profiling Across DatasetsUse when you are curating metabolomics datasets with variable columnVotes: 0GitHub stars: 16
- Metadata Extraction And PopulationUse when when importing raw mass spectrometry data from files in supportedVotes: 0GitHub stars: 16
- Metadata Extraction From Fixed Offset RecordsUse when you have a binary file (e.g., NV format) with a known fixed-sizeVotes: 0GitHub stars: 16
- Metadata Extraction From Spectral DataUse when you have raw mass spectrometry files in one of the supportedVotes: 0GitHub stars: 16
- Metadata Field Based Sample StratificationUse when you have a feature table and accompanying CSV metadata thatVotes: 0GitHub stars: 16
- Metadata Field Extraction And RestructuringUse when reading mass spectral library files (particularly MoNA EI orVotes: 0GitHub stars: 16
- Metadata Field NormalizationUse when immediately after importing raw mass spectrometry data fromVotes: 0GitHub stars: 16
- Metadata Field ValidationUse when you have received new or updated MassBank records (in plain-textVotes: 0GitHub stars: 16
- Metadata Harmonization Across SourcesUse when you have completed independent batch searches across one orVotes: 0GitHub stars: 16
- Metadata Harmonization StandardizationUse when when you have preprocessed MS/MS spectra from multiple sourceVotes: 0GitHub stars: 16
- Metadata Integrity CheckingUse when after processing LCMS feature data through Blueshift or GravityVotes: 0GitHub stars: 16
- Metadata Normalization And ReconciliationUse when you have multiple CSV feature lists from different acquisitionVotes: 0GitHub stars: 16
- Metadata Structure CheckingUse when after loading a metadata file but before merging it with positiveVotes: 0GitHub stars: 16
- Metadata Structure Field EnrichmentUse when a metadata table contains compound names and identifiers butVotes: 0GitHub stars: 16
- Metadata Structure MappingUse when you have mzML-format raw data files from mass spectrometry experimentsVotes: 0GitHub stars: 16
- Metadata Structure StandardizationUse when when you have experimental metadata (e.g., sample annotations,Votes: 0GitHub stars: 16
- Metadata Structure TransformationUse when you have raw tabular experimental metadata (mass spectrometryVotes: 0GitHub stars: 16
- Method Equivalence Verification Across Api InvocationsUse when when a tool like TARDIS extends its API to accept multiple inputVotes: 0GitHub stars: 16
- Mgf File ParsingUse when you have raw or MZmine-processed MGF files (containing MS/MSVotes: 0GitHub stars: 16
- Mgf Metadata Completion From SmilesUse when when processing MGF-format MS2 spectral libraries (e.g., GNPS)Votes: 0GitHub stars: 16
- Microbe Compound IdentificationUse when you have collected MS/MS spectra from a microbial sample (pureVotes: 0GitHub stars: 16
- Microbe Metabolite Prediction Neural Network'Use when you have paired microbiome (16S or metagenomic taxonomy/functionsVotes: 0GitHub stars: 16
- Microbial Metabolomics Phage Impact Assessment'Use when you have normalized peak intensities (with assigned molecularVotes: 0GitHub stars: 16
- Microbiome Metabolome Abundance NormalizationUse when when you have raw count matrices from paired microbiome (16SVotes: 0GitHub stars: 16
- Microbiome Metabolome Data Preprocessing Clr TransformationUse when you have paired microbiome and metabolomic abundance tablesVotes: 0GitHub stars: 16
- Microbiome Metabolome Data PreprocessingUse when when starting with raw paired microbiome (16S rRNA, metagenomicVotes: 0GitHub stars: 16
- Microbiome Metabolome Prediction ModelingUse when you have paired microbiome (16S rRNA, metagenomic) and metabolomicVotes: 0GitHub stars: 16
- Migration Time ExtractionUse when you have OnDiskMSnExp CE-MS objects with known marker compoundsVotes: 0GitHub stars: 16
- Minimum Cost Flow FormulationUse when you have an NMR mixture spectrum and a library of single-compoundVotes: 0GitHub stars: 16
- Mirror Plot Visualization For Spectrum ComparisonUse when after computing compareSpectra similarity scores between anVotes: 0GitHub stars: 16
- Mispicked Ion Detection And MergingUse when immediately after importing raw LC-MS peak tables (e.g., ProgenesisVotes: 0GitHub stars: 16
- Missing Data Mechanism SpecificationUse when when you have a metabolomics abundance table with missing valuesVotes: 0GitHub stars: 16
- Missing Fraction Quality Filtering For EmbeddingsUse when after converting MS/MS spectra to fixed-length vector representationsVotes: 0GitHub stars: 16
- Missing Pattern Generation ValidationUse when you have a complete metabolomics data matrix (simulated or realVotes: 0GitHub stars: 16
- Missing Peak Imputation FillpeaksUse when apply fillPeaks after retention time alignment (whether XCMSVotes: 0GitHub stars: 16
- Missing Value Imputation By Data RecursionUse when after sample alignment and feature grouping in untargeted LC-MSVotes: 0GitHub stars: 16
- Missing Value Imputation For Column MetadataUse when when preparing raw HPLC column parameter arrays for featurizationVotes: 0GitHub stars: 16
- Missing Value Imputation For PcaUse when your metabolomic dataset contains missing values (common inVotes: 0GitHub stars: 16
- Missing Value Imputation In MetabolomicsUse when after feature extraction and quality control filtering (blankVotes: 0GitHub stars: 16
- Missing Value Imputation In Quantification TablesUse when after feature alignment across multiple LC-MS/MS runs, whenVotes: 0GitHub stars: 16
- Missing Value Imputation Strategy SelectionUse when after mark_nas() has replaced non-NA missing-value codes (e.g.,Votes: 0GitHub stars: 16