Claude Skills by HolobiomicsLab

Use when when you have a mass spectrometry data file (such as mzPeak)

Use when you have a collection of MS/MS spectra from reference standards

Use when when you have thousands to millions of high-resolution tandem

'Use when you have an unknown MS/MS spectrum (query spectrum with m/z

Use when after duplicate filtering of MZmine-exported MGF and CSV files,

Use when when you have a large MsBackend object and need to (1) select

Use when when you have raw mass spectra from experimental libraries (e.

Use when after successfully constructing a nearest neighbor index from

Use when when clustering large collections (thousands to millions) of

Use when when you have a processed or annotated MsmsSpectrum object (from

Use when you have a Sphinx-based documentation project with multiple

Use when processing raw IM-MS data (Agilent MassHunter .d or UIMF format)

Use when after loading spatial metabolomics data (from CSV, imzML, or

Use when when migrating spectral library data from file-based formats

Use when you have an mzML file and need to enable random-access spectrum

Use when you have mass spectrometry data stored in a SQLite database

Use when your analysis requires raw sequencing reads stored in NCBI SRA

Use when when you have mass spectrometry data (MS1/MS2 scans from ThermoFisher

Use when you have centroided high-resolution Orbitrap mzML files from

Use when you have XCMS-processed LC/MS peak tables from paired unlabeled

Use when you have a high-resolution mass spectrum (FT scan) containing

Use when you have cloned the GNPS_MASST codebase and need to instantiate

Use when you have LC-HRMS profile-mode data with detected local maxima

Use when after training a multi-component neural network architecture

Use when when preparing to submit a pull request to a collaborative Python

Use when when you have prediction scores (softmax probabilities, uncertainties)

Use when after computing aggregate statistics (mean, median, standard

Use when you have ranked GCF-MF (Gene Cluster Family–Molecular Family)

Use when when you have peak area tables (unlabeled C12 and labeled C13)

Use when you have a metabolite abundance table (rows=metabolites, columns=samples)

Use when you have computed raw or standardised correlation scores (or

Use when after log-transformation and missing-value imputation of a metabolomics

Use when you have trained multiple machine learning algorithms (e.

Use when after loading preprocessed metabolomics data (log-transformed

Use when you have implemented or obtained a statistical method (e.g.,

Use when after statistical analysis has produced a results table with

Use when you have omics abundance or expression measurements paired with

Use when you have downloaded a Jupyter notebook from a published metabolomics

Use when when you have run the same mass spectrum through molecular formula

Use when after aligning fragment ions between two tandem mass spectra

Use when after performing univariate statistical tests (e.g., ANOVA,

Use when you have sampled flux distributions from two or more constraint-based

Use when after standardizing link scores (strain correlation and IOKR)

Use when when you have computed rank-based accuracy metrics (top-1, top-5,

Use when you have generated omu_summary or anova_function output (a dataframe

Use when you have access to a published repository containing simulation

Use when you have a collection of Biosynthetic Gene Clusters that have

Use when when you have a table of execution times or performance metrics

Use when after data transformation, normalization, and filtering are

'Use when after data preprocessing, quality control, and batch effect