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openbmb
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SciCore-Omics is a tri-modal biomedical foundation model that connects histology images, spatial transcriptomic profiles, and biological language for spatial biology and pathology-related reasoning.
The model introduces a gene-aware branch based on NicheFormer + Gene Q-Former + Gene Projector, enabling transcriptomic information to be aligned with the language-model token space.
SciCore-Omics supports:
This Hugging Face repository hosts the model weights.
For full inference and training code, please refer to the GitHub repository:
bash
git clone https://github.com/OpenBMB/Scicore-Omics.gitcd Scicore-OmicsDownload the model weights:
bash
huggingface-cli download openbmb/SciCore-Omics \ --local-dir ./weights/SciCore-OmicsMinimal loading example:
python
import torchfrom transformers import AutoModel, AutoTokenizer, AutoProcessor model_path = "openbmb/SciCore-Omics" processor = AutoProcessor.from_pretrained( model_path, trust_remote_code=True) tokenizer = AutoTokenizer.from_pretrained( model_path, trust_remote_code=True) model = AutoModel.from_pretrained( model_path, trust_remote_code=True, torch_dtype=torch.bfloat16, device_map="auto") model.eval()For complete examples, please see:
https://github.com/OpenBMB/Scicore-Omics/tree/main/eval
| Resource | Link |
|---|---|
| Model weights | https://huggingface.co/openbmb/SciCore-Omics |
| GitHub code | https://github.com/OpenBMB/Scicore-Omics |
| Online demo | https://huggingface.co/spaces/Alkaidxxy/SciCore-Omics |
SciCore-Omics is released for research use only.
It may generate inaccurate or incomplete biomedical interpretations and should not be used as a standalone clinical diagnostic or treatment recommendation system.
bibtex
@misc{xiao2026scicoreomics, title = {SciCore-Omics: a tri-modal foundation model unifying histology, spatial transcriptomics and language for spatial biology}, author = {Xiao, Xinyu and Li, Yunfei and Zeng, Zheni and others}, year = {2026}, note = {Manuscript in preparation}}This project is released under the Apache-2.0 License.
git clone https://github.com/OpenBMB/Scicore-Omics.gitcd Scicore-Omicshuggingface-cli download openbmb/SciCore-Omics \ --local-dir ./weights/SciCore-Omicsimport torchfrom transformers import AutoModel, AutoTokenizer, AutoProcessor model_path = "openbmb/SciCore-Omics" processor = AutoProcessor.from_pretrained( model_path, trust_remote_code=True) tokenizer = AutoTokenizer.from_pretrained( model_path, trust_remote_code=True) model = AutoModel.from_pretrained( model_path, trust_remote_code=True, torch_dtype=torch.bfloat16, device_map="auto") model.eval()@misc{xiao2026scicoreomics, title = {SciCore-Omics: a tri-modal foundation model unifying histology, spatial transcriptomics and language for spatial biology}, author = {Xiao, Xinyu and Li, Yunfei and Zeng, Zheni and others}, year = {2026}, note = {Manuscript in preparation}}