Claude Skills by HolobiomicsLab

Use when after k-nearest neighbor imputation (cutoff ≥0.6 data retention)

Use when after preprocessing and normalizing joint ST/SM AnnData objects

Use when when implementing or auditing S4 replacement methods (e.

Use when you have raw MS data files directly from a vendor instrument

Use when raw MRM lipidomics data arrives in vendor-specific export formats

Use when you have a raw MSI data file from an unknown or mixed set of

Use when you have mass-spectrometry raw data files from multiple vendors

'Use when when Rapid QC-MS receives vendor-format LC-MS acquisition files

Use when you have a collection of raw mass spectrometry data files from

Use when when ingesting raw LC-MS/MS output from a mass spectrometry

Use when you have acquired raw mass spectrometry data in vendor-proprietary

Use when you have one or more vendor mass spectrometry raw files (Thermo

Use when you have mass spectrometry raw data in a proprietary vendor

Use when you have a directory containing mass spectrometry data files

Use when when you have modifications to propose for a shared codebase

Use when you have edited core R scripts (Modular.r, genEIC.r, MS1Spectragen.r,

Use when you have a set of chemical compounds (with known retention times

Use when you need to create a synthetic chemical population for testing

Use when you have a Python application (e.g., ROIAL-NMR) with documented

Use when before installing ENPKG dependencies for the first time, or

Use when when you have generated or extracted a chemical mixture (via

Use when you have a library of natural product compounds (encoded as

Use when after database search algorithms have scored unknown MS samples

Use when when you have cloned a multi-framework .NET project (e.g., MsdialWorkbench

Use when you have execution-time data for the same set of plotting operations

Use when you have generated exploratory data analysis plots (PCA, correlation

Use when after merging separate vocabularies for distinct data modalities

Use when you have omu_summary output containing log2FoldChange and adjusted

Use when after statistical analysis (e.g., edgeR) has produced a results

Use when you have CSV files containing fold-change estimates and statistical

Use when when you have performed two-group differential expression analysis

Use when you are composing multiple containerized services that have

'Use when after applying two or more LC-MS alignment algorithms (such

Use when when you have both an observed NMR mixture spectrum and a candidate

Use when you need to support multiple external services (CIR, CTS, PubChem,

Use when you have access to a project README or repository documentation

Use when you have a user-submitted spectrum with associated domain context

Use when you are wrapping an existing R package or analytical library

Use when when you have a parsed mass spectrum (precursor m/z, ionization

Use when when you need to confirm that a publicly hosted academic web

Use when your annotation pipeline depends on multiple external web converters

Use when after deploying a containerized web application (e.g., via `docker

Use when you have downloaded a web application (e.g., COLMARvista) that

Use when you need to run a local HTML file that uses WebWorker or WebAssembly

Use when after WGCNA has identified and named metabolic correlation modules

Use when when training a dual-encoder architecture (bi-encoder + cross-encoder)

Use when you have computed a pathway dysregulation score matrix (PDSmatrix)

Use when validating project JSON documents against the platform's schema

Use when after baseline correction (e.g., via asymmetric least squares)

Use when when building or maintaining a local natural-product reference