This repository is a modular toolkit for academic research workflows, providing reusable 'skills' that assist with tasks such as manuscript preparation, figure generation, citation management, paper downloading, and presentation creation. Each skill is self-contained with its own workflow, documentation, and validation, while sharing common components through a nature-shared module. The system is designed for integration with AI agents (like Codex and Claude Code) and emphasizes verifiable, reproducible outputs that comply with journal-specific standards (particularly Nature Portfolio journals).
FigMirror is a reference-conditioned scientific figure style transfer system that iteratively generates matplotlib scripts matching the visual style of a reference figure. It operates as a multi-agent loop (Drawer/Reviewer) orchestrated by a runner backend (Codex, Claude, or Mock), with a local web UI for upload, iteration browsing, and refinement. The system is packaged as skills for both Claude Code and Codex, plus a standalone web server. While primarily an application, it has a strong research component: the prompts, aesthetic library, and evaluation benchmarks (PlotTwin-Bench) are the result of extensive empirical iteration. The codebase demonstrates high craftsmanship in its runner architecture, atomic file operations, SSE streaming, and deterministic review gates. However, it suffers from dual skill bundles (Claude/Codex) that must stay synchronized, retired artifacts, and some incomplete features (ClaudeRunner, SSE integration).