Claude Skills by HolobiomicsLab

Use when you have Nightingale Health 1H-NMR metabolomics assay output

Use when when you have log2-normalized, standardized peak intensity data

Use when you have a metabolite intensity matrix (rows=metabolites or

Use when you have a metabolomics peak intensity matrix with feature IDs

'Use when after constructing a background set for ORA in metabolomics:

Use when you have peak intensity data from metabolomics experiments with

Use when you have differential metabolomics results (p-values and log2

Use when when a user has prepared a custom collection of metabolite sets

Use when when you have multi-batch metabolomics data (SummarizedExperiment

Use when you have raw untargeted LC/HRMS data (mzXML, mzML, or netCDF

Use when you have meta-analyzed metabolomic results from multiple studies

Use when you have an unknown compound's mass spectrum (m/z peaks and

Use when you have two or more mass spectral libraries in different formats

Use when you have an experimental mass spectrum (or a set of spectra

Use when you have uploaded a pre-analytical data table containing sample

Use when you have measured metabolites or lipids from blood samples (plasma

Use when when you have quantified intracellular metabolite abundances

Use when after statistical analysis (e.g., MB-PLS with permutation testing)

Use when after MamsiStructSearch has completed structural clustering

Use when you have a set of candidate transformed structures generated

Use when you have chemical structures (as SMILES or molecular structure

Use when when importing candidate metabolite structures from public chemical

Use when you have a small-molecule structure (SMILES, MOL, or SDF format)

Use when you have a parent compound (or set of compounds) in SMILES,

Use when you have multiple tandem MS/MS libraries in different formats

Use when you have a raw LC–MS compound metadata file (xlsx or csv) with

Use when when you have MS/MS-annotated features from a natural extract

Use when you have metabolomic data (e.g., from LC-MS or GC-MS comparing

Use when you have a peak intensity matrix (samples × metabolites) with

Use when when you have compiled p-values and fold-changes from multiple

Use when you have metabolomic results from multiple studies with only

Use when you have genome FASTA or annotated genome files (antiSMASH .gbk,

Use when after marker identification (via fold-change, PLS-DA, t-test,

Use when you have raw peak table data from liquid chromatography–mass

Use when immediately after integrating multiple metabolomic datasets

Use when you have multi-class or time-course metabolomic peak tables

Use when when you have raw metabolomics data with missing values in metabolite

Use when after peak detection in MZmine2 has produced an MGF file (containing

Use when you have a preprocessed MultiAssayExperiment with metabolite

Use when you have raw or minimally processed FT-ICR MS peak tables in

Use when you have two or more CSV feature tables from independent metabolomic

Use when you have centroid mzML files from LC-MS acquisitions and need

Use when after running the Marr() function on preprocessed metabolomic

Use when when a preprocessed metabolomic feature table (e.g., MS-Dial

Use when you have two LC-MS feature tables (each with m/z, retention

Use when after applying the CV_ratio() filtering function to a normalized

Use when when you have a normalized and batch-corrected feature abundance

Use when when you have LC-MS data (mzML or netCDF format) and a pre-defined

Use when after feature detection (e.g., Asari processing of mzML files

Use when after feature detection and peak alignment have produced a feature