Plugin

alliance-agents

Name: alliance-agents
Author: alliance-genome

Specialized agents for advanced Alliance development workflows. Includes MCP server architecture and PRD writing.

npx claudepluginhub alliance-genome/agr_claude_code --plugin alliance-agents

Component Overview

Agents

Component Details

Agents (2)

mcp-architect

/mcp-architect

Use this agent when you need to design, implement, or troubleshoot Model Context Protocol (MCP) servers that bridge LLMs with external APIs for natural language querying. This includes creating new MCP integrations, configuring existing servers, debugging connection issues, or architecting search capabilities over API data. Examples: **Example 1 - Creating a new MCP server:** user: "I want to connect Claude to our internal inventory database so I can ask questions like 'what products are low in stock?'" assistant: "I'll use the mcp-architect agent to design and implement an MCP server for your inventory database." <Task tool call to mcp-architect agent> **Example 2 - Integrating a third-party API:** user: "Can you help me set up an MCP server that connects to the GitHub API so I can search issues and PRs with natural language?" assistant: "Let me launch the mcp-architect agent to create a GitHub MCP integration with natural language search capabilities." <Task tool call to mcp-architect agent> **Example 3 - Debugging MCP configuration:** user: "My PubMed MCP server isn't returning results when I ask about recent papers. Here's my config..." assistant: "I'll use the mcp-architect agent to diagnose and fix your MCP server configuration." <Task tool call to mcp-architect agent> **Example 4 - Proactive suggestion after API discussion:** user: "We have a REST API for our customer support tickets at api.company.com/tickets" assistant: "I notice you have a REST API that could benefit from natural language querying. Let me use the mcp-architect agent to design an MCP server that would let you ask questions like 'show me urgent tickets from this week' or 'find tickets about billing issues'." <Task tool call to mcp-architect agent>

product-manager

/product-manager

Use this agent when you need to create a Product Requirements Document (PRD) for any feature or platform initiative. This agent should be used proactively whenever there's a high-level product request that needs to be transformed into a comprehensive, executive-ready PRD. The agent will produce a crisp, decision-friendly document with clear requirements, metrics, and implementation details. Examples: <example>Context: The user wants to develop a new feature for their application.user: "We need to add a recommendation engine to our e-commerce platform"assistant: "I'll use the product-manager agent to create a comprehensive PRD for this recommendation engine feature"<commentary>Since this is a high-level feature request that needs to be turned into a structured product document, use the product-manager agent to create a PRD.</commentary></example><example>Context: The user is planning a platform initiative.user: "Let's build a new API gateway for our microservices"assistant: "I'm going to use the product-manager agent to develop a detailed PRD for the API gateway initiative"<commentary>This is a platform initiative that requires proper product documentation, so the product-manager agent should be used to create the PRD.</commentary></example>

README

Alliance of Genome Resources - Claude Code Resources

Shared Claude Code configurations, plugins, and best practices for Alliance of Genome Resources developers.

[!IMPORTANT] Claude Code runs in a regular terminal, not in the Claude web UI. Alliance access is for the Claude Code command-line tool only. If the Claude website or Claude desktop chat app still shows a personal Free plan, that is expected. To use Alliance-provided Claude Code access, open a normal terminal window on your computer (for example Terminal, iTerm, Windows Terminal, or PowerShell) and run Claude Code there.

What is Claude Code?
Getting Started
Essential Tips
Extending Claude Code
- Plugins
- MCP Servers
Tips & Best Practices
Advanced Usage
Contributing

What is Claude Code?

Claude Code is a command-line tool that brings Claude AI directly into your terminal. Instead of copying code back and forth from a chat window, Claude Code can:

Read and edit files in your project directly
Run commands like tests, builds, and git operations
Understand your codebase by exploring files and dependencies
Make changes across multiple files to implement features or fix bugs

You interact with it through natural conversation in your terminal:

You:    Can you add error handling to the API client?
Claude: I'll add try/catch blocks and proper error messages. Let me read the current
        implementation first...
        [Claude reads files, makes edits, runs tests]

Getting Started

Step 1: Request Access to the Alliance Anthropic Group

To get started with Claude Code at the Alliance, you need to be added to our Anthropic organization:

Message Chris T on the Alliance Slack
Include in your message:
- A request to be added to the Alliance Anthropic group
- The email address you want to use for your Claude account

You'll receive an email invitation to join the Alliance Anthropic organization once your request is processed.

Step 2: Read the Official Quickstart

⚠️ Please take 10 minutes to read this: Claude Code Quickstart Guide

The official guide covers essential workflows that will save you hours:

How to ask Claude effective questions
Git integration (commits, branches, merge conflicts)
Debugging and feature implementation patterns
Pro tips that make a real difference

You'll get far more out of Claude Code if you understand its capabilities upfront.

Step 3: Install Claude Code

As mentioned in the quickstart guide, once you've received your invitation and created your account, install the Claude Code CLI:

macOS, Linux, WSL:

curl -fsSL https://claude.ai/install.sh | bash

Windows PowerShell:

irm https://claude.ai/install.ps1 | iex

Alternative: Homebrew (macOS/Linux):

brew install --cask claude-code

One-time installation: Claude Code only needs to be installed once per computer. After installation, you can run claude from any directory - you don't need to install it separately for each project or repository.

Note: Native installations auto-update automatically. Homebrew requires manual updates via brew upgrade claude-code.

Step 4: Log In and Start Using Claude Code

Open your terminal in any project directory
Start Claude Code:
```
claude
```
Log in when prompted:
- Use the email you provided in Step 1
- Important: When asked to choose an account type, select the second option: "Anthropic Console Account" (API Usage Billing). Don't select the first option (Claude Pro/Max subscription).
Start coding! Try asking:
```
> what does this project do?
```

Step 5: Set Your Model to Opus

⚠️ Important: Make sure your model is set to Opus for the best results.

Check and set your model:

/model

Select Opus from the list. This setting persists across sessions.

Why Opus? Opus is Claude's most capable model - it handles complex codebases better, makes fewer mistakes, and produces higher quality code. If you're finding Claude's suggestions unhelpful or off-target, check that you're using Opus.

Additional Resources

CLI Reference - All commands and options
Common Workflows - Step-by-step guides

Essential Tips

These three habits will dramatically improve your experience with Claude Code. They're simple but make a huge difference in the quality and reliability of the code Claude produces.

1. Make a Plan Before Coding

View full README on GitHub

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Stats

Version1.0.0

Parent Repo Stars1

Parent Repo Forks1

MaintenanceFair

AddedJan 28, 2026

Actions

View on GitHub View README Plugin Marketplace JSON

Available In

alliance-plugins1

Safety Signals

Caution

Uses power tools

Uses Bash, Write, or Edit tools

Alliance of Genome Resources - Claude Code Resources

Shared Claude Code configurations, plugins, and best practices for Alliance of Genome Resources developers.

[!IMPORTANT] Claude Code runs in a regular terminal, not in the Claude web UI. Alliance access is for the Claude Code command-line tool only. If the Claude website or Claude desktop chat app still shows a personal Free plan, that is expected. To use Alliance-provided Claude Code access, open a normal terminal window on your computer (for example Terminal, iTerm, Windows Terminal, or PowerShell) and run Claude Code there.

What is Claude Code?
Getting Started
Essential Tips
Extending Claude Code
- Plugins
- MCP Servers
Tips & Best Practices
Advanced Usage
Contributing

What is Claude Code?

Claude Code is a command-line tool that brings Claude AI directly into your terminal. Instead of copying code back and forth from a chat window, Claude Code can:

Read and edit files in your project directly
Run commands like tests, builds, and git operations
Understand your codebase by exploring files and dependencies
Make changes across multiple files to implement features or fix bugs

You interact with it through natural conversation in your terminal:

You:    Can you add error handling to the API client?
Claude: I'll add try/catch blocks and proper error messages. Let me read the current
        implementation first...
        [Claude reads files, makes edits, runs tests]

Getting Started

Step 1: Request Access to the Alliance Anthropic Group

To get started with Claude Code at the Alliance, you need to be added to our Anthropic organization:

Message Chris T on the Alliance Slack
Include in your message:
- A request to be added to the Alliance Anthropic group
- The email address you want to use for your Claude account

You'll receive an email invitation to join the Alliance Anthropic organization once your request is processed.

Step 2: Read the Official Quickstart

⚠️ Please take 10 minutes to read this: Claude Code Quickstart Guide

The official guide covers essential workflows that will save you hours:

How to ask Claude effective questions
Git integration (commits, branches, merge conflicts)
Debugging and feature implementation patterns
Pro tips that make a real difference

You'll get far more out of Claude Code if you understand its capabilities upfront.

Step 3: Install Claude Code

As mentioned in the quickstart guide, once you've received your invitation and created your account, install the Claude Code CLI:

macOS, Linux, WSL:

curl -fsSL https://claude.ai/install.sh | bash

Windows PowerShell:

irm https://claude.ai/install.ps1 | iex

Alternative: Homebrew (macOS/Linux):

brew install --cask claude-code

One-time installation: Claude Code only needs to be installed once per computer. After installation, you can run claude from any directory - you don't need to install it separately for each project or repository.

Note: Native installations auto-update automatically. Homebrew requires manual updates via brew upgrade claude-code.

Step 4: Log In and Start Using Claude Code

Open your terminal in any project directory
Start Claude Code:
```
claude
```
Log in when prompted:
- Use the email you provided in Step 1
- Important: When asked to choose an account type, select the second option: "Anthropic Console Account" (API Usage Billing). Don't select the first option (Claude Pro/Max subscription).
Start coding! Try asking:
```
> what does this project do?
```

Step 5: Set Your Model to Opus

⚠️ Important: Make sure your model is set to Opus for the best results.

Check and set your model:

/model

Select Opus from the list. This setting persists across sessions.

Additional Resources

CLI Reference - All commands and options
Common Workflows - Step-by-step guides

Essential Tips

These three habits will dramatically improve your experience with Claude Code. They're simple but make a huge difference in the quality and reliability of the code Claude produces.

alliance-agents

Component Overview

Component Details

Agents (2)

README

Alliance of Genome Resources - Claude Code Resources

Table of Contents

What is Claude Code?

Getting Started

Step 1: Request Access to the Alliance Anthropic Group

Step 2: Read the Official Quickstart

Step 3: Install Claude Code

Step 4: Log In and Start Using Claude Code

Step 5: Set Your Model to Opus

Additional Resources

Essential Tips

1. Make a Plan Before Coding

Similar Plugins

team-skills-platform

alliance-agents

Component Overview

Component Details

Agents (2)

README

Alliance of Genome Resources - Claude Code Resources

Table of Contents

What is Claude Code?

Getting Started

Step 1: Request Access to the Alliance Anthropic Group

Step 2: Read the Official Quickstart

Step 3: Install Claude Code

Step 4: Log In and Start Using Claude Code

Step 5: Set Your Model to Opus

Additional Resources

Essential Tips

1. Make a Plan Before Coding

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