Use Bio.Entrez to access NCBI databases (e.g., PubMed/GenBank) for searching, fetching summaries, and downloading records when your workflow needs to call the NCBI E-utilities API…
Use Bio.Phylo to read/write phylogenetic trees and perform visualization and statistics; use when tree parsing/conversion, pruning/rerooting, distance calculation, or plotting is…
Primary Python toolkit for molecular biology. Preferred for Python-based PubMed/NCBI queries (Bio.Entrez), sequence manipulation, file parsing (FASTA, GenBank, FASTQ, PDB),…
Biopython sequence analysis: parse FASTA/FASTQ/GenBank/GFF (SeqIO), NCBI Entrez (esearch/efetch/elink), remote/local BLAST, pairwise/MSA alignment (PairwiseAligner,…
Use Biopython to read/write/convert biological sequence files (FASTA/GenBank/FASTQ, etc.) and perform basic sequence operations; use when you need reliable sequence I/O,…
Use Bio.PDB to parse and analyze protein structures (PDB/mmCIF) for structural bioinformatics tasks; use when you need structure parsing, geometry calculations, or structural…
Python-based markdown to PDF/EPUB converter with custom font embedding. Generates both formats in a single run using pypandoc.
Bootstrap Python MCP server projects and workspaces on macOS using uv and FastMCP with consistent defaults.
Bootstrap Python FastAPI services on macOS using uv with consistent project and workspace scaffolds. Use when creating a new backend/API service from scratch, scaffolding a single…
Mine Botcoin with a trust-first workflow: clear value proposition, verifiable binaries, and explicit operational guidance.
Analyze recent Braintrust traces from the Elçi AI Odoo agent. Use when the user asks to "analyze traces", "review last N runs", "check trace comments", or wants prompt/agent…
Braintrust tracing for Claude Code - hook architecture, sub-agent correlation, debugging
broot is a Rust-based terminal tool that provides a new way to see and navigate directory trees. It offers fuzzy search, file preview, git status integration, and an interactive…
Browser-automated file download with enhanced features. Auto-detects platform (Windows/macOS/Linux, 64/32-bit, ARM/Intel), handles multi-step navigation (homepage to…
Drive a real headless browser — navigate, click, type, submit forms, screenshot, and extract from JavaScript-rendered pages (when browser.read's plain fetch isn't enough)
Run systematic bug hunting with spec reconstruction, adversarial validation, and confidence scoring. Use when you want to hunt bugs (not fix them), validate correctness, or run…
Scaffold, build, and run MCP servers from a predictable Python project layout with tools, prompts, resources, auth, and OpenTelemetry hooks.
Build or modify idiomatic C# .NET projects using nullable-aware APIs, records/classes, async/task behavior, analyzer conventions, tests, and repo-local validation.
Compose coding-agent primitives in Rust, including tool execution, LLM streaming, sub-agent orchestration, memory, and MCP support, as an embeddable application workflow.
Use Atmosphere to build JVM agent gateways that stream over WebSocket, SSE, gRPC, WebTransport, MCP, A2A, and AG-UI with governance hooks.
Implement and maintain idiomatic Java backend services, including package structure, records, sealed types, nullability, optionals, exceptions, concurrency, dependency boundaries,…
Use the official Model Context Protocol PHP SDK to expose PHP application capabilities as MCP tools, resources, and prompts for agent workflows.
Build a local-first Python agent service with typed tools, exact model capability checks, evaluation fixtures, and safe promotion gates.
Implements pip-installable Python libraries from scratch using src layout, pyproject.toml, and pytest.
Build or modify idiomatic Python projects using uv, explicit package layout, typed configuration, focused tests, Ruff, mypy, and repo-local validation without overriding…
Writes correct, version-aware Telegram bot code. Use when writing, extending, or debugging a Telegram bot in python-telegram-bot, aiogram, grammY, or Telegraf.
Migrate a Maven or Gradle project one Java LTS step from Java 11 to Java 17: it must compile under JDK 17, conserve every previously-passing test, and raise the effective compiler…
Migrate a Maven or Gradle project one Java LTS step from Java 17 to Java 21: it must compile under JDK 21, conserve every previously-passing test, and raise the effective compiler…
Migrate a Maven or Gradle project one Java LTS step from Java 21 to Java 25: it must compile under JDK 25, conserve every previously-passing test, and raise the effective compiler…
Migrate a Maven or Gradle project one Java LTS step from Java 8 to Java 11: it must compile under JDK 11, conserve every previously-passing test, and raise the effective compiler…
Use when you have a mature C++ library (like OpenMS) with stable APIs that you want to make accessible from Python environments, and you need to preserve performance-critical C++…
CairoSVG is a Python-based SVG converter built on the Cairo 2D graphics library. It converts SVG files to PNG, PDF, EPS, and PostScript formats via both a CLI and a Python API,…
Review CakePHP changes for ownership boundaries, ORM usage, conventions, and unsafe assumptions — discover before prescribing.
Use whenever an analysis makes or implies a CAUSAL claim — "the effect of", "X caused Y", "the policy raised", "the treatment increased", "because we did X, Y changed" — or…
Decision-aid skill for bootstrap and verification chains; forces the "what authenticates the code that authenticates everything else" question and provides patterns for signed…
Enable developers to learn and use Chainlink Runtime Environment (CRE) quickly by referencing filtered CRE docs.
Ownership router — decide which CakePHP abstraction should own a concern before implementing it.
Choose the right Python project shape before implementation, including uv project versus workspace layout, package, CLI, FastAPI, FastMCP, testing, packaging, tooling, and…
Ciphera code style conventions - mandatory formatting and language idioms for source code (TypeScript-first, applies to every language) - American-English naming, double quotes,…
Build AI applications with the Anthropic TypeScript SDK. Use when creating Claude integrations, building agents, implementing tool use, streaming responses, or working wi — from…
Extract and structure any web page into clean JSON. Returns text, tables, prices, contacts, hours, ratings, dates, links, and images.
HTTP client for Clojure and Babashka built on java.net.http. Use when making HTTP requests, working with REST APIs, downloading files, or needing WebSocket support in Babashka or…
Reference for donut.party/system - component lifecycle and dependency injection library for Clojure. Use when working with component definitions, system management, refs between…
Modern HTTP client for Clojure wrapping JDK 11+ java.net.http. Use when working with HTTP requests, REST APIs, async HTTP calls, WebSockets, or needing HTTP/2 support.
Ring specification for HTTP server applications in Clojure. Use when working with: (1) Ring handlers (sync or async), (2) Ring request maps and their keys, (3) Ring response maps…
REPL debugging tool for capturing and inspecting local scope at runtime. Use when debugging functions, investigating test failures, understanding intermediate values, or when you…
Realtime bidirectional communications between Clojure server and ClojureScript client. Use when building apps where BOTH client and server use sente - NOT for connecting to…
Guide Clojure and ClojureScript development using REPL-driven workflow, coding conventions, and best practices.
Guide Clojure and ClojureScript development using REPL-driven workflow, coding conventions, and best practices.
Build Python APIs on Cloudflare Workers using pywrangler CLI and WorkerEntrypoint class pattern. Includes Python Workflows for multi-step DAG automation.
Build Python APIs on Cloudflare Workers using pywrangler CLI and WorkerEntrypoint class pattern. Includes Python Workflows for multi-step DAG automation.
Analyze implementation details, trace data flow, and explain technical workings with precise file:line references. Use when you need to understand HOW code works.
Find and document file locations in the codebase. Use when you need to locate implementation files, tests, configurations, or any code artifacts by feature or topic.
Develop and run Mojo code in Claude.ai containers. Handles installation, compilation, and execution. Use when writing Mojo code, benchmarking Mojo vs Python, or when user mentions…
Use when creating or scaffolding a NEW public bitranox Python library - a pip-installable package with a rich-click CLI, CI across Python 3.10-3.14 on Linux/macOS/Windows, and a…
Colly is a fast open-source scraping and crawling framework for Go. It is built for everything from simple page extraction to asynchronous crawlers that process large collections…
Resolve Python dependency inputs into deterministic lock files and sync environments without hand-editing transitive pins.
Compile a Java project and verify the build. Use when testing migration success, running Maven or Gradle builds, or resolving compilation errors.
Expert knowledge for deploying and operating Composable Rust applications in production. Use when setting up database migrations, configuring connection pools, implementing…
Expert knowledge for implementing distributed sagas in Composable Rust. Use when coordinating multiple aggregates in distributed transactions, implementing compensation logic or…