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ara-compiler

Category: research-automation · License: MIT · Version: 1.0.0 Tags: ARA, Research Artifacts, Knowledge Extraction, Paper Ingestion, Exploration Graph, Provenance, Research Tooling, Epistemic Compilation

When to use it

Compiles any research input — PDF papers, GitHub repositories, experiment logs, code directories, or raw notes — into a complete Agent-Native Research Artifact (ARA) with cognitive layer (claims, concepts, heuristics), physical layer (configs, code stubs), exploration graph, and grounded evidence. Use when ingesting a paper or codebase into a structured, machine-executable knowledge package, building an ARA from scratch, or converting research outputs into a falsifiable, agent-traversable form.

Example requests

Ask your agent in plain language, for example:
  • “Turn this paper into an ARA: ~/papers/lora_scaling.pdf”
  • “I’ve got the repo at ./diffusion-protein-design (README, train.py, configs/sweep_v3.yaml) plus a folder of wandb logs from our runs and a Slack export where we argued about why we dropped the contact-map loss. Compile all of it into a structured, agent-traversable knowledge package in ./ara/protein, and make the dead ends explicit.”
  • “My advisor wants our single-cell atlas project written up in a machine-readable form that an AI agent could follow and check, with every claim falsifiable and tied to evidence. I only have messy notes in notes.md and a few result CSVs. How do I get there?”

Install

In Claude Code you can also add the marketplace with /plugin marketplace add KalarisLabs/research-agent-skills and install the whole research-automation category with /plugin install research-automation@research-agent-skills.

Full playbook

Read SKILL.md for the complete workflow, references and any scripts. The agent installer copies the full skill folder.
Last modified on October 19, 2026