Instructions to use naniltx/codonGPT with libraries, inference providers, notebooks, and local apps. Follow these links to get started.
- Libraries
- Transformers
How to use naniltx/codonGPT with Transformers:
# Use a pipeline as a high-level helper from transformers import pipeline pipe = pipeline("text-generation", model="naniltx/codonGPT")# Load model directly from transformers import AutoTokenizer, AutoModelForCausalLM tokenizer = AutoTokenizer.from_pretrained("naniltx/codonGPT") model = AutoModelForCausalLM.from_pretrained("naniltx/codonGPT") - Notebooks
- Google Colab
- Kaggle
- Local Apps
- vLLM
How to use naniltx/codonGPT with vLLM:
Install from pip and serve model
# Install vLLM from pip: pip install vllm # Start the vLLM server: vllm serve "naniltx/codonGPT" # Call the server using curl (OpenAI-compatible API): curl -X POST "http://localhost:8000/v1/completions" \ -H "Content-Type: application/json" \ --data '{ "model": "naniltx/codonGPT", "prompt": "Once upon a time,", "max_tokens": 512, "temperature": 0.5 }'Use Docker
docker model run hf.co/naniltx/codonGPT
- SGLang
How to use naniltx/codonGPT with SGLang:
Install from pip and serve model
# Install SGLang from pip: pip install sglang # Start the SGLang server: python3 -m sglang.launch_server \ --model-path "naniltx/codonGPT" \ --host 0.0.0.0 \ --port 30000 # Call the server using curl (OpenAI-compatible API): curl -X POST "http://localhost:30000/v1/completions" \ -H "Content-Type: application/json" \ --data '{ "model": "naniltx/codonGPT", "prompt": "Once upon a time,", "max_tokens": 512, "temperature": 0.5 }'Use Docker images
docker run --gpus all \ --shm-size 32g \ -p 30000:30000 \ -v ~/.cache/huggingface:/root/.cache/huggingface \ --env "HF_TOKEN=<secret>" \ --ipc=host \ lmsysorg/sglang:latest \ python3 -m sglang.launch_server \ --model-path "naniltx/codonGPT" \ --host 0.0.0.0 \ --port 30000 # Call the server using curl (OpenAI-compatible API): curl -X POST "http://localhost:30000/v1/completions" \ -H "Content-Type: application/json" \ --data '{ "model": "naniltx/codonGPT", "prompt": "Once upon a time,", "max_tokens": 512, "temperature": 0.5 }' - Docker Model Runner
How to use naniltx/codonGPT with Docker Model Runner:
docker model run hf.co/naniltx/codonGPT
Update README.md
Browse files
README.md
CHANGED
|
@@ -236,12 +236,14 @@ codonGPT/
|
|
| 236 |
|
| 237 |
If you use CodonGPT in your research, please cite:
|
| 238 |
|
| 239 |
-
```
|
| 240 |
-
@
|
| 241 |
-
title={
|
| 242 |
-
author={
|
| 243 |
-
|
| 244 |
-
|
|
|
|
|
|
|
| 245 |
}
|
| 246 |
```
|
| 247 |
|
|
|
|
| 236 |
|
| 237 |
If you use CodonGPT in your research, please cite:
|
| 238 |
|
| 239 |
+
```bibtex
|
| 240 |
+
@article{rajbanshi2025codongpt,
|
| 241 |
+
title={codonGPT: Reinforcement learning on a generative language model optimizes RNA sequences under biological constraints},
|
| 242 |
+
author={Rajbanshi, Binita and Guruacharya, Anuj},
|
| 243 |
+
journal={bioRxiv},
|
| 244 |
+
year={2025},
|
| 245 |
+
doi={10.1101/2025.06.25.661500},
|
| 246 |
+
url={https://doi.org/10.1101/2025.06.25.661500}
|
| 247 |
}
|
| 248 |
```
|
| 249 |
|