A modern, browser-based tool for sequence analysis and molecular evolution studies.

Datamonkey 3 is designed to provide researchers with an intuitive interface to validate, analyze, and visualize sequence data without requiring server-side computation. It brings powerful sequence analysis methods directly to your browser, with a workflow built around clarity and efficiency.

• Intuitive Workflow: Progress logically from data preparation to analysis to results
• Progressive Disclosure: View only what you need when you need it
• Browser-First: No installation required, works across platforms
• Local Privacy: Your data stays on your machine using browser storage

• Sequence Validation: Identify and repair issues in FASTA and NEXUS files
• Phylogenetic Analysis: Run methods including FEL, SLAC, MEME, BUSTED, and more
• Tree Selection: Choose from inferred or user-provided trees for analysis
• Interactive Visualization: Explore results with embedded interactive visualizations
• Batch Export: Export multiple analysis results as a ZIP archive
• Local Data Storage: Secure, browser-based storage for files and analyses

Visit the hosted version: https://v3.datamonkey.org

# Clone the repository
git clone https://github.com/stevenweaver/datamonkey3.git
cd datamonkey3

# Install dependencies
npm install

# Start development server
npm run dev

# Build for production
npm run build

1. Data: Upload and validate sequence files
2. Analyze: Select and configure analysis methods
3. Results: View, compare, and export findings

Datamonkey 3 supports Umami for privacy-focused analytics. To enable:

# Add to your .env file
PUBLIC_UMAMI_URL=https://your-umami-instance.com/script.js
PUBLIC_UMAMI_WEBSITE_ID=your-website-id

Analytics only loads when both variables are set.

• Frontend: Svelte with TailwindCSS
• Analysis: WebAssembly (HyPhy)
• Storage: IndexedDB for browser-based persistence
• Visualization: Embedded iframes with postMessage communication

1. Update the method configuration in the codebase
2. Ensure visualization components are available at the correct endpoint
3. Update documentation for the new method

MIT License

Designed with clarity, utility, and restraint.