Technology
Rxiv-Maker transforms scientific writing from chaos to clarity, converting Markdown manuscripts into professional, publication-ready PDFs with advanced features specifically designed for scientific publishing.
🚀 Get Started on GitHub → | ⚡ Try in Google Colab → | 📖 Read the Docs →
The key innovation of Rxiv-Maker is bridging the gap between Markdown's simplicity and LaTeX's professional output quality. Write in accessible Markdown format, get publication-ready PDFs with LaTeX-quality formatting—no LaTeX expertise required.
✨ Key Features
🔬 Enhanced Scientific Markdown
- 20+ specialized features including scientific cross-references (
@fig:label,@eq:label) - Smart citations with automatic bibliography management
- Advanced formatting: subscript (
~text~), superscript (^text^), page breaks (<newpage>)
🎨 Automated Figure Generation
- Python/R/Mermaid integration with intelligent caching
- Programmatic visualization that stays synchronized with your data
- Professional output in PDF, PNG, and SVG formats
🚀 Modern CLI & Workflows
- Beautiful command-line interface with progress indicators and auto-completion
- GitHub Actions integration for automated document generation
- Docker support for reproducible builds across platforms
🌟 Multiple Access Points
- 🌐 Google Colab: No installation required—try it now!
- ⚡ GitHub Actions: Automated cloud builds for team collaboration
- 🏠 Local Development: Full control with
pip install rxiv-maker
🔄 Git-Native Workflows
- Version control integration for collaborative manuscript development
- Change tracking with visual diff PDFs against git tags
- Computational provenance ensuring reproducible research outputs
🚀 Quick Start Guide
Option 1: Google Colab (Recommended for Beginners)
Zero installation required! Open our interactive notebook and generate your first PDF in minutes:
Option 2: Modern CLI Installation
# Install from PyPI
pip install rxiv-maker
# Initialize your first manuscript
rxiv init MY_PAPER/
# Generate PDF
rxiv pdf MY_PAPER/
# Enable auto-completion (optional)
rxiv --install-completion bash # or zsh, fish
Option 3: GitHub Integration
Perfect for team collaboration—automatic PDF generation on every commit: - View setup guide →
🎯 Perfect For
🧬 Computational Biology & Imaging - Manuscripts with programmatically generated figures - Data analysis workflows requiring reproducible visualizations - Multi-author papers with complex figure dependencies
👥 Collaborative Research - Teams using Git for manuscript version control - Projects requiring consistent formatting across contributors - International collaborations with different LaTeX expertise levels
📊 Technical Documentation - Research reports with embedded code and figures - Grant applications requiring professional formatting - Supplementary materials for journal submissions
🔬 Why Rxiv-Maker?
Traditional academic writing is broken. Researchers spend countless hours wrestling with LaTeX formatting instead of focusing on their science. Meanwhile, simple Markdown lacks the sophisticated features needed for scientific publishing.
Rxiv-Maker solves this. It treats manuscripts as executable outputs rather than static documents, ensuring your visualizations always reflect current data and analysis. This is game-changing for:
- Microscopy & Image Analysis: Figures update automatically as algorithms improve
- Data-Driven Research: Plots stay synchronized with evolving datasets
- Collaborative Science: Teams can contribute without LaTeX expertise
- Reproducible Research: Complete computational provenance from code to publication
"Rxiv-Maker has transformed how we write papers—our figures are always current, our formatting is always professional, and our collaborators can contribute without LaTeX knowledge."
🌟 Join the Community
⭐ Star us on GitHub | 🐛 Report Issues | 💬 Discussions
Ready to revolutionize your scientific writing? Get started with Rxiv-Maker today →
Publications featuring Rxiv-Maker
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Rxiv-Maker: an automated template engine for streamlined scientific publications Bruno M. Saraiva, Guillaume Jacquemet, Ricardo Henriques Preprint published in Zenodo, July 2025 Technologies: Rxiv-Maker () Funded by: CZI, EMBO, ERC, H2021 and H2022 DOI: 10.5281/zenodo.15805470 |
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