paper-to-experiment

Convert physics research papers into validated MD simulation configurations.

6|Updated Feb 14, 2026
One-click install
npx skills add https://github.com/thematteroftime/agentic-md-for-dummies --skill paper-to-experiment
Or copy as Structured Prompt for Agent
Please help me install this Agent Skill.
Skill: paper-to-experiment
Source: https://github.com/thematteroftime/agentic-md-for-dummies/tree/main/.claude/skills/paper-to-experiment
Command: npx skills add https://github.com/thematteroftime/agentic-md-for-dummies --skill paper-to-experiment

SYSTEM DOCUMENTATION & REQUIREMENTS

💡 This Skill requires PyPDF2, PyYAML, jsonschema, matplotlib, and includes scripts (resource) and references (resource) components.

What problem does it solve?

This Skill automates the process of transforming physics research papers into validated, executable simulation configurations, reducing manual effort and human error.

Core Features & Use Cases

  • Paper Parsing & Validation: Reads PDFs, extracts key parameters, and aligns data with predefined schemas for reproducibility.
  • Schema & Registry Enforcement: Ensures all parameters match registered force types, integrators, and analysis classes, providing validation checkpoints.
  • Campaign Generation & Management: Produces detailed JSON configs for systematic parameter sweeps, facilitating large-scale reproducibility studies.
  • Use Case: For a researcher reproducing a plasma physics experiment, this tool configures simulation inputs based on paper data, validates correctness, and prepares for automated runs.

Quick Start

Use the paper-to-experiment skill to generate a validated MD campaign config by providing the paper PDF and key parameters.

Frequently Asked Questions about paper-to-experiment

High-intent search queries and answers about installing and using this skill.

FAQPage Schema
How do I convert a physics research paper PDF into an executable MD simulation configuration?

To convert a physics research paper PDF into a simulation configuration, this Skill parses the document to extract key parameters and aligns them with predefined schemas. It generates validated JSON inputs for computational physics reproducibility.

How does schema validation work when generating reproducible simulation configs from research papers?

Schema validation works by enforcing registry compliance, checking that extracted parameters match registered force types, integrators, and analysis classes. This provides validation checkpoints to reduce manual effort and human error.

Can I use PyPDF2 and jsonschema to automate parameter extraction for computational physics experiments?

Yes, you can automate parameter extraction for computational physics experiments using PyPDF2 to read PDFs and jsonschema to validate the data. The process requires precise parameter extraction integrated with Python scripting.

What is the best way to set up large-scale parameter sweeps for materials science simulations?

The best way to set up large-scale parameter sweeps for materials science simulations is by producing detailed campaign management configs. This Skill generates JSON configurations for systematic parameter sweeps, facilitating automated reproducibility studies.

Do I need predefined schemas to reproduce a plasma physics experiment from a paper?

Yes, predefined schemas are required to reproduce a plasma physics experiment from a paper. Schema and registry enforcement ensures extracted inputs match registered force types and integrators, providing validation checkpoints for correctness.