Developer Tools

Primary Python tool for 40+ bioinformatics services. Preferred for multi-database workflows: UniProt, KEGG, ChEMBL, PubChem, Reactome, QuickGO. Unified API for queries, ID mapping, pathway analysis. For direct REST control, use individual database skills (uniprot-database, kegg-database).

Install Codex skills into $CODEX_HOME/skills from a curated list or a GitHub repo path. Use when a user asks to list installable skills, install a curated skill, or install a skill from another repo (including private repos).

Prompt Injection Firewall for AI agents. 113 detection patterns, 14 threat categories, zero dependencies. Protects against fake authority, command injection, memory poisoning, skill malware, crypto spam, and more. Hash-chain tamper-proof whitelist with mandatory peer review. Claude Code hook integration.

Extract content from specific URLs using Tavily's extraction API. Returns clean markdown/text from web pages. Use when you have specific URLs and need their content without writing code.

AI-powered idea/problem/challenge manager with GitHub integration. Captures, categorizes, reviews, and helps ship ideas to repos.

Infrastructure as Code with Terraform and Terragrunt. Use for creating, validating, troubleshooting, and managing Terraform configurations, modules, and state. Covers Terraform workflows, best practices, module development, state management, Terragrunt patterns, and common issue resolution.

Help address review/issue comments on the open GitHub PR for the current branch using gh CLI; verify gh auth first and prompt the user to authenticate if not logged in.

Use when receiving code review feedback, before implementing suggestions, especially if feedback seems unclear or technically questionable - requires technical rigor and verification, not performative agreement or blind implementation

Automate GitHub workflows with AI assistance. Includes PR reviews, issue triage, CI/CD integration, and Git operations. Use when automating GitHub workflows, setting up PR review automation, creating GitHub Actions, or triaging issues.

Use when implementation is complete, all tests pass, and you need to decide how to integrate the work - guides completion of development work by presenting structured options for merge, PR, or cleanup

Build AI agents that interact with computers like humans do - viewing screens, moving cursors, clicking buttons, and typing text. Covers Anthropic's Computer Use, OpenAI's Operator/CUA, and open-source alternatives. Critical focus on sandboxing, security, and handling the unique challenges of vision-based control. Use when: computer use, desktop automation agent, screen control AI, vision-based agent, GUI automation.

GGUF format and llama.cpp quantization for efficient CPU/GPU inference. Use when deploying models on consumer hardware, Apple Silicon, or when needing flexible quantization from 2-8 bit without GPU requirements.