jackspace/claudeskillz

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biorxiv-database Efficient database search tool for bioRxiv preprint server. Use this skill when searching for life sciences preprints…

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cloudflare-mcp-server Builds and deploys remote Model Context Protocol (MCP) servers on Cloudflare Workers in TypeScript with @modelcontext…

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cloudflare-workflows Complete knowledge domain for Cloudflare Workflows - durable execution framework for building multi-step applications…

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condition-based-waiting Use when tests have race conditions, timing dependencies, or inconsistent pass/fail behavior - replaces arbitrary tim…

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dask Parallel/distributed computing. Scale pandas/NumPy beyond memory, parallel DataFrames/Arrays, multi-file processing, …

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dispatching-parallel-agents Use when facing 3+ independent failures that can be investigated without shared state or dependencies - dispatches mu…

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gget CLI/Python toolkit for rapid bioinformatics queries. Preferred for quick BLAST searches. Access to 20+ databases: gen…

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google-gemini-embeddings Covers the Google Gemini embeddings API (gemini-embedding-001) for RAG, semantic search, document clustering, and sim…

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matchms Mass spectrometry analysis. Process mzML/MGF/MSP, spectral similarity (cosine, modified cosine), metadata harmonizati…

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neurokit2 Comprehensive biosignal processing toolkit for analyzing physiological data including ECG, EEG, EDA, RSP, PPG, EMG, a…

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pyhealth Comprehensive healthcare AI toolkit for developing, testing, and deploying machine learning models with clinical data…

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pymatgen Materials science toolkit. Crystal structures (CIF, POSCAR), phase diagrams, band structure, DOS, Materials Project i…

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pymc-bayesian-modeling Bayesian modeling with PyMC. Build hierarchical models, MCMC (NUTS), variational inference, LOO/WAIC comparison, post…

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pyopenms Python interface to OpenMS for mass spectrometry data analysis. Use for LC-MS/MS proteomics and metabolomics workflow…

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scanpy Single-cell RNA-seq analysis. Load .h5ad/10X data, QC, normalization, PCA/UMAP/t-SNE, Leiden clustering, marker genes…

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shopify Build Shopify applications, extensions, and themes using GraphQL/REST APIs, Shopify CLI, Polaris UI components, and L…

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stable-baselines3 Use this skill for reinforcement learning tasks including training RL agents (PPO, SAC, DQN, TD3, DDPG, A2C, etc.), c…

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using-git-worktrees Use when starting feature work that needs isolation from current workspace or before executing implementation plans -…

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zarr-python Chunked N-D arrays for cloud storage. Compressed arrays, parallel I/O, S3/GCS integration, NumPy/Dask/Xarray compatib…

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api-integration-builder Generates production-ready API clients with TypeScript types, retry logic, rate limiting, authentication (OAuth, API …

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cellxgene-census Query CZ CELLxGENE Census (61M+ cells). Filter by cell type/tissue/disease, retrieve expression data, integrate with …

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22

codex Executes OpenAI Codex CLI for code analysis, refactoring, and automated editing. Activates when users mention codex c…

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cosmic-database Access COSMIC cancer mutation database. Query somatic mutations, Cancer Gene Census, mutational signatures, gene fusi…

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datacommons-client Work with Data Commons, a platform providing programmatic access to public statistical data from global sources. Use …

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datamol Pythonic wrapper around RDKit with simplified interface and sensible defaults. Preferred for standard drug discovery:…

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26

diffdock Diffusion-based molecular docking. Predict protein-ligand binding poses from PDB/SMILES, confidence scores, virtual s…

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ena-database Access European Nucleotide Archive via API/FTP. Retrieve DNA/RNA sequences, raw reads (FASTQ), genome assemblies by a…

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error-tracking Add Sentry v8 error tracking and performance monitoring to your project services. Use this skill when adding error ha…

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etetoolkit Phylogenetic tree toolkit (ETE). Tree manipulation (Newick/NHX), evolutionary event detection, orthology/paralogy, NC…

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executing-plans Use when partner provides a complete implementation plan to execute in controlled batches with review checkpoints - l…

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finishing-a-development-branch Use when implementation is complete, all tests pass, and you need to decide how to integrate the work - guides comple…

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flowio Parse FCS (Flow Cytometry Standard) files v2.0-3.1. Extract events as NumPy arrays, read metadata/channels, convert t…

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geo-database Access NCBI GEO for gene expression/genomics data. Search/download microarray and RNA-seq datasets (GSE, GSM, GPL), r…

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hmdb-database Access Human Metabolome Database (220K+ metabolites). Search by name/ID/structure, retrieve chemical properties, biom…

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kegg-database Direct REST API access to KEGG (academic use only). Pathway analysis, gene-pathway mapping, metabolic pathways, drug …

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metabolomics-workbench-database Access NIH Metabolomics Workbench via REST API (4,200+ studies). Query metabolites, RefMet nomenclature, MS/NMR data,…

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molfeat Molecular featurization for ML (100+ featurizers). ECFP, MACCS, descriptors, pretrained models (ChemBERTa), convert S…

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openai-assistants >- Guide to OpenAI's Assistants API v2: stateful conversational AI with Code Interpreter, File Search and function ca…

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openai-responses Reference for OpenAI's Responses API (/v1/responses), the unified stateful API for agentic applications. Covers reaso…

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pdb-database Access RCSB PDB for 3D protein/nucleic acid structures. Search by text/sequence/structure, download coordinates (PDB/…

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pubchem-database Query PubChem via PUG-REST API/PubChemPy (110M+ compounds). Search by name/CID/SMILES, retrieve properties, similarit…

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route-tester Test authenticated routes in the your project using cookie-based authentication. Use this skill when testing API endp…

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scikit-bio Biological data toolkit. Sequence analysis, alignments, phylogenetic trees, diversity metrics (alpha/beta, UniFrac), …

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scvi-tools This skill should be used when working with single-cell omics data analysis using scvi-tools, including scRNA-seq, sc…

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simpy Process-based discrete-event simulation framework in Python. Use this skill when building simulations of systems with…

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template-skill Replace with description of the skill and when Claude should use it.

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testing-anti-patterns Use when writing or changing tests, adding mocks, or tempted to add test-only methods to production code - prevents t…

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uniprot-database Direct REST API access to UniProt. Protein searches, FASTA retrieval, ID mapping, Swiss-Prot/TrEMBL. For Python workf…

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verification-before-completion Use when about to claim work is complete, fixed, or passing, before committing or creating PRs - requires running ver…

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writing-plans Use when design is complete and you need detailed implementation tasks for engineers with zero codebase context - cre…

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