工具

Access ClinPGx pharmacogenomics data (successor to PharmGKB). Query gene-drug interactions, CPIC guidelines, allele functions, for precision medicine and genotype-guided dosing decisions.

Comprehensive toolkit for creating, analyzing, and visualizing complex networks and graphs in Python. Use when working with network/graph data structures, analyzing relationships between entities, computing graph algorithms (shortest paths, centrality, clustering), detecting communities, generating synthetic networks, or visualizing network topologies. Applicable to social networks, biological networks, transportation systems, citation networks, and any domain involving pairwise relationships.

High-performance toolkit for genomic interval analysis in Rust with Python bindings. Use when working with genomic regions, BED files, coverage tracks, overlap detection, tokenization for ML models, or fragment analysis in computational genomics and machine learning applications.

Production-ready reinforcement learning algorithms (PPO, SAC, DQN, TD3, DDPG, A2C) with scikit-learn-like API. Use for standard RL experiments, quick prototyping, and well-documented algorithm implementations. Best for single-agent RL with Gymnasium environments. For high-performance parallel training, multi-agent systems, or custom vectorized environments, use pufferlib instead.

CLI/Python toolkit for rapid bioinformatics queries. Preferred for quick BLAST searches. Access to 20+ databases: gene info (Ensembl/UniProt), AlphaFold, ARCHS4, Enrichr, OpenTargets, COSMIC, genome downloads. For advanced BLAST/batch processing, use biopython. For multi-database integration, use bioservices.

Python library for working with DICOM (Digital Imaging and Communications in Medicine) files. Use this skill when reading, writing, or modifying medical imaging data in DICOM format, extracting pixel data from medical images (CT, MRI, X-ray, ultrasound), anonymizing DICOM files, working with DICOM metadata and tags, converting DICOM images to other formats, handling compressed DICOM data, or processing medical imaging datasets. Applies to tasks involving medical image analysis, PACS systems, radiology workflows, and healthcare imaging applications.

Vendor-agnostic lab automation framework. Use when controlling multiple equipment types (Hamilton, Tecan, Opentrons, plate readers, pumps) or needing unified programming across different vendors. Best for complex workflows, multi-vendor setups, simulation. For Opentrons-only protocols with official API, opentrons-integration may be simpler.

Comprehensive molecular biology toolkit. Use for sequence manipulation, file parsing (FASTA/GenBank/PDB), phylogenetics, and programmatic NCBI/PubMed access (Bio.Entrez). Best for batch processing, custom bioinformatics pipelines, BLAST automation. For quick lookups use gget; for multi-service integration use bioservices.

Integration with protocols.io API for managing scientific protocols. This skill should be used when working with protocols.io to search, create, update, or publish protocols; manage protocol steps and materials; handle discussions and comments; organize workspaces; upload and manage files; or integrate protocols.io functionality into workflows. Applicable for protocol discovery, collaborative protocol development, experiment tracking, lab protocol management, and scientific documentation.

Write comprehensive clinical reports including case reports (CARE guidelines), diagnostic reports (radiology/pathology/lab), clinical trial reports (ICH-E3, SAE, CSR), and patient documentation (SOAP, H&P, discharge summaries). Full support with templates, regulatory compliance (HIPAA, FDA, ICH-GCP), and validation tools.

Materials science toolkit. Crystal structures (CIF, POSCAR), phase diagrams, band structure, DOS, Materials Project integration, format conversion, for computational materials science.

Full-featured computational pathology toolkit. Use for advanced WSI analysis including multiplexed immunofluorescence (CODEX, Vectra), nucleus segmentation, tissue graph construction, and ML model training on pathology data. Supports 160+ slide formats. For simple tile extraction from H&E slides, histolab may be simpler.

Use when you have a plan file ready and need to create an isolated git worktree for implementation - creates worktree in parent directory following project conventions and moves the plan file

Analyzes Claude Code usage patterns and provides comprehensive recommendations. Runs usage analysis, discovers GitHub community resources, suggests CLAUDE.md improvements, and fetches latest docs on-demand. Use when user wants to optimize their Claude Code workflow, create configurations (agents/skills/commands), or set up project documentation.

This skill should be used when the user asks to "identify web application vulnerabilities", "explain common security flaws", "understand vulnerability categories", "learn about injection attacks", "review access control weaknesses", "analyze API security issues", "assess security misconfigurations", "understand client-side vulnerabilities", "examine mobile and IoT security flaws", or "reference the OWASP-aligned vulnerability taxonomy". Use this skill to provide comprehensive vulnerability definitions, root causes, impacts, and mitigation strategies across all major web security categories.

This skill should be used when the user asks to "escalate privileges on Linux", "find privesc vectors on Linux systems", "exploit sudo misconfigurations", "abuse SUID binaries", "exploit cron jobs for root access", "enumerate Linux systems for privilege escalation", or "gain root access from low-privilege shell". It provides comprehensive techniques for identifying and exploiting privilege escalation paths on Linux systems.

This skill should be used when the user asks to "create bash scripts", "automate Linux tasks", "monitor system resources", "backup files", "manage users", or "write production shell scripts". It provides ready-to-use shell script templates for system administration.

This skill should be used when the user asks to "search for exposed devices on the internet," "perform Shodan reconnaissance," "find vulnerable services using Shodan," "scan IP ranges with Shodan," or "discover IoT devices and open ports." It provides comprehensive guidance for using Shodan's search engine, CLI, and API for penetration testing reconnaissance.

This skill should be used when the user asks to "follow red team methodology", "perform bug bounty hunting", "automate reconnaissance", "hunt for XSS vulnerabilities", "enumerate subdomains", or needs security researcher techniques and tool configurations from top bug bounty hunters.

This skill should be used when the user asks to "test for XSS vulnerabilities", "perform cross-site scripting attacks", "identify HTML injection flaws", "exploit client-side injection vulnerabilities", "steal cookies via XSS", or "bypass content security policies". It provides comprehensive techniques for detecting, exploiting, and understanding XSS and HTML injection attack vectors in web applications.