PlantHelixSeek-CRE

Fine-tuned from PlantHelixSeek for cis-regulatory element (CRE) prediction — binary classification of open-chromatin / CRE regions.

Task

• Type: Sequence classification (binary)
• Base model: PlantHelixSeek (470M)

Usage

from transformers import AutoModelForSequenceClassification, AutoTokenizer

model = AutoModelForSequenceClassification.from_pretrained(
    "zhangtaolab/PlantHelixSeek-CRE", trust_remote_code=True
)
tokenizer = AutoTokenizer.from_pretrained(
    "zhangtaolab/PlantHelixSeek-CRE", trust_remote_code=True
)

Full genome-wide CRE prediction + peak calling pipeline: see scripts/cis_regulatory/.

License

CC-BY-NC 4.0