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genbio-ai/
GB.RNA-1.6B-transcript-abundance-ecoli

Name: GB.RNA-1.6B-transcript-abundance-ecoli
Availability: InStock

genbio-ai/rna-downstream-tasks

genbio-ai/GB.RNA-1.6B

finetune

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5-fold cross-validation LoRA fine-tuned checkpoints for transcript abundance prediction (ecoli).

How to Use

Download model

python

from huggingface_hub import snapshot_download
from pathlib import Path

model_name = "genbio-ai/GB.RNA-1.6B-transcript-abundance-ecoli"
genbio_models_path = Path.home().joinpath('genbio_models', model_name)
genbio_models_path.mkdir(parents=True, exist_ok=True)
snapshot_download(repo_id=model_name, local_dir=genbio_models_path)

Load model for inference

python

from modelgenerator.tasks import SequenceRegression

ckpt_path = genbio_models_path.joinpath('fold0', 'model.ckpt')
model = SequenceRegression.load_from_checkpoint(ckpt_path, strict_loading=False).eval()

collated_batch = model.transform({"sequences": ["ACGT", "AGCT"]})
logits = model(collated_batch)
print(logits)