CoolFace
Modelpublic

kojima-lab/molcrawl-genome-sequence-gpt2-medium

sourceHugging Faceapache-2.0updated 3mo agoView on Hugging Face
1likes33downloads
Model Card

molcrawl-genome-sequence-gpt2-medium

Model Description

GPT-2 medium (345M parameters) foundation model pre-trained on human genome DNA sequences from the GRCh38 reference assembly.

Datasets

  • —Model Type: gpt2
  • —Data Type: DNA/Genome
  • —Training Date: 2026-06-22

Usage

python
from transformers import AutoModelForCausalLM, AutoTokenizer
import torch

model = AutoModelForCausalLM.from_pretrained("kojima-lab/molcrawl-genome-sequence-gpt2-medium")
tokenizer = AutoTokenizer.from_pretrained("kojima-lab/molcrawl-genome-sequence-gpt2-medium")

# Generate DNA/genome sequence
prompt = "ATCGATCGATCGATCGATCGATCGATCGATCG"
inputs = tokenizer(prompt, return_tensors="pt")
with torch.no_grad():
    output_ids = model.generate(
        **inputs,
        max_new_tokens=50,
        do_sample=True,
        temperature=0.8,
        eos_token_id=None,  # HF config.json has legacy eos_token_id=0; disable early stop
        pad_token_id=0,
    )
print(tokenizer.decode(output_ids[0], skip_special_tokens=True))

Source Code

Training pipeline, configuration files, and data preparation scripts are available in the MolCrawl GitHub repository: https://github.com/mmai-framework-lab/MolCrawl

License

This model is released under the APACHE-2.0 license.

Citation

If you use this model, please cite:

bibtex
@misc{molcrawl_genome_sequence_gpt2_medium,
  title={molcrawl-genome-sequence-gpt2-medium},
  author={{RIKEN}},
  year={2026},
  publisher={{Hugging Face}},
  url={{https://huggingface.co/kojima-lab/molcrawl-genome-sequence-gpt2-medium}}
}