Deep learning-based variant calling from long reads using Clair3 for SNPs and small indels. Use when calling germline variants from ONT or PacBio alignments, particularly when high accuracy is needed for clinical or research applications.

Common Clap patterns and idioms for argument parsing, validation, and CLI design. Use when implementing CLI arguments with Clap v4+.

Detect and analyze geometric clashes between BIM elements. Identify hard clashes, soft clashes, and workflow conflicts using spatial analysis and rule-based detection.

Quick classifier training with automatic model selection, hyperparameter tuning, and comprehensive evaluation metrics.

Apply the multi-proxy discrimination framework to classify geochemical anomalies as SEISMIC, CLIMATIC, VOLCANIC, or COMPOUND (CVSE). This is the core methodology for distinguishing earthquake signals

Build coding agents with the Claude Agent SDK. Use when creating agentic workflows, implementing todo tracking, monitoring agent progress, building multi-turn conversations, streaming responses, or integrating custom tools with Claude Code.

claude-agent-sdk

Save 50-90% on Claude API costs with Batch API, Prompt Caching & Extended Thinking. Official techniques, verified.

claude-api

Create and maintain Claude Code agents/subagents (.claude/agents/*.md) with YAML frontmatter (name/description/tools/model/permissionMode/skills/hooks), least-privilege tool selection, delegation patterns (Task), context budgeting, and safety best practices.

Analyze repo's .claude/** for overlap with bluera-base and suggest cleanup

Diagnose slow Claude Code startup and guide cleanup. Use /bluera-base:claude-code-clean to run.

Executes tasks using the Claude Code CLI (`claude`). Automatically determines the safest permission mode (plan, acceptEdits, or bypassPermissions) based on the task type.

claude-code-guide

Create event-driven hooks for Claude Code automation. Configure hook events in settings or frontmatter, parse stdin JSON inputs, return decision-control JSON, and implement secure hook scripts.

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Helps choose the right Claude Code extension mechanism (slash commands, skills, subagents, or hooks) for a given use case. Use when discussing how to extend Claude Code, automate workflows, or implement custom functionality.

Expert knowledge of Claude Code CLI tools (Read, Write, Edit, Bash, Grep, Glob, Task, MCP), features (Skills, Checkpoints, Hooks), and best practices for agentic coding assistance

Expert skill for developing professional Claude Code plugins.

Create distributable plugins that bundle commands, agents, skills, hooks, MCP servers, and LSP servers.

Reference guide for Claude Code extensions. CONSULT BEFORE implementing skills, creating hooks, slash commands, or MCP servers. Use when building Claude Code extensions, understanding extension differences, or troubleshooting extension issues. Covers skills vs commands vs hooks vs MCP disambiguation.

Enable and configure Claude Code OTEL telemetry for local or Railway observability stacks. Use when setting up Claude Code to send metrics, logs, and traces to observability backends.

Expert on Claude Code CLI, skills, commands, hooks, plugins, MCP, settings, and workflows. Triggers on claude code, cli, skill, command, hook, plugin, mcp, slash command, settings

Use when live coding music with SuperCollider via ClaudeCollider MCP server.

Guide for creating custom slash commands for Claude Code. Use when adding new commands, defining command arguments, or implementing command workflows.

Enables autonomous context management for codebases through claude.md files. Use when creating, maintaining, or synchronizing AI agent context. Provides tools and workflows for monitoring context health, detecting staleness, and updating intelligently. Helps Claude work proactively as a context manager.

Look up examples and patterns from the official Anthropic Claude Cookbooks repository. Use when you need reference implementations, code examples, or best practices for Claude integrations, tool use, agents, prompting techniques, or API usage.

Run an autonomous radio DJ session using Strudel live-coded music. Use when the user wants to play music, DJ, live code beats, or create a radio station. Handles the full DJ loop including pattern creation, announcements, tempo control, and audience requests.

Guides Claude Code setup and configuration. Use when setting up CLAUDE.md, rules, hooks, or skills structure for projects.

Interactive hook creator for Claude Code. Triggers when user mentions creating hooks, PreToolUse, PostToolUse, hook validation, hook configuration, settings.json hooks, or wants to automate tool execution workflows.

**Original Doc URL**: https://code.claude.com/docs/en/hooks-guide

Expert on Model Context Protocol (MCP) integration, MCP servers, installation, configuration, and authentication. Triggers when user mentions MCP, MCP servers, installing MCP, connecting tools, MCP resources, MCP prompts, or remote/local MCP servers.

Model Context Protocol (MCP) expert for Claude Code. Install, configure, and troubleshoot MCP servers. Covers HTTP, SSE, and stdio transports, authentication, popular integrations (Sentry, GitHub, Jira, Notion, databases). Triggers on MCP, Model Context Protocol, MCP server, installing MCP, connecting tools, webhooks, remote server.

Use when implementing Claude API cost tracking, monitoring token usage, displaying cost metrics in Settings, or user asks about costs - calculates exact costs using $0.003/1k input and $0.015/1k output pricing with per-session aggregation

claude-optimization

Author reference for claude-pilot components. Skills, commands, agents, rules documentation patterns. VIBE coding compliance.

Guide for creating Claude Code plugins with correct structure and components.

Comprehensive validation system for Claude Code plugins to ensure compliance with official plugin development guidelines and prevent installation failures

Guide for creating and validating Claude Code plugin.json files. Use when creating plugins, validating plugin schemas, or troubleshooting plugin configuration.

Use when brainstorming product names, company names, or brand names. Based on David Placek's Lexicon Branding methodology (Vercel, Swiffer, Sonos, Azure, BlackBerry).

Anthropic official XML tag patterns and prompt engineering best practices. Document behavior control tags, system prompt internals, and the 10-Component Framework for effective Claude prompts.

Clearing history and starting fresh...

Expert integration patterns for Claude API and TypeScript SDK covering Messages API, streaming responses, tool use, error handling, token optimization, and production-ready implementations for building AI-powered applications

Build autonomous AI agents using Claude Agent SDK with computer use, tool calling, MCP integration, and production best practices for Anthropic models

Expert on Claude Code settings.json configuration, permissions, sandbox, environment variables, and settings hierarchy. Triggers when user mentions settings.json, permissions, allow rules, deny rules, sandbox, hooks configuration, or settings precedence.

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Build AI applications with the Anthropic TypeScript SDK. Use when creating Claude integrations, building agents, implementing tool use, streaming responses, or working with the @anthropic-ai/sdk package.

Anthropic's Claude AI assistant via web interface.

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Apply strict operational protocols for AI task execution including sequential processing, minimal responses, no destructive operations without confirmation