# Sample Prompts for NexaSci Agent

These prompts are designed to showcase the agent's capabilities: reasoning, tool usage, code generation, and citation.

## Python Simulation Prompts

### 1. Physics Simulation
```
Design a Python simulation to model the trajectory of a projectile launched at 45 degrees with air resistance. Include visualization and explain the physics.
```

### 2. Diffusion Model
```
Create a Python simulation to model the diffusion of nanoparticles in a fluid. Include visualization and cite relevant literature on nanoparticle transport.
```

### 3. Chemical Reaction
```
Simulate a first-order chemical reaction A → B with rate constant k=0.1. Plot concentration vs time and compare with analytical solution.
```

## Literature Search & Citation Prompts

### 4. Recent Advances
```
Summarize recent advances in room-temperature superconductivity. Search for papers from the last 2 years and cite key findings.
```

### 5. Methodology Review
```
Find and summarize papers on CRISPR-Cas9 gene editing techniques. Focus on delivery methods and cite at least 3 recent papers.
```

### 6. Comparative Analysis
```
Compare different approaches to quantum error correction. Search the literature and provide a structured comparison with citations.
```

## Experimental Design Prompts

### 7. Battery Research
```
Design a reproducible procedure to measure battery degradation in solid-state lithium cells over 200 charge cycles. Include controls and statistical analysis.
```

### 8. Material Synthesis
```
Design an experiment to synthesize graphene oxide using the Hummers method. Include safety considerations and quality characterization steps.
```

### 9. Biological Assay
```
Design a lab protocol to measure protein concentration using the Bradford assay. Include calibration curve preparation and error analysis.
```

## Combined Reasoning Prompts

### 10. Full Workflow
```
I want to understand how machine learning is being used in drug discovery. First, search for recent papers on this topic, then write a Python script to analyze a sample dataset of molecular properties, and finally summarize the key findings with citations.
```

### 11. Code + Literature
```
Create a Python simulation of a neural network learning XOR, then search for papers on neural network interpretability and cite relevant work.
```

### 12. Hypothesis Testing
```
Formulate a hypothesis about the relationship between temperature and enzyme activity. Design an experiment to test it, write Python code to simulate the results, and search for literature to support or refute your hypothesis.
```

## Usage

Run any of these prompts with:

```bash
python examples/demo_agent.py --prompt "Your prompt here"
```

Or use the test script:

```bash
python examples/test_agent.py --raw "Your prompt here"
```