WangLab @ U of T

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65 repositories

CryoDINO
Public
3DINO pretraining on Cryo-electron tomograms with fine-tuning for particle and organelle identification using cutting-edge decoders. …
Jupyter Notebook
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Other
•0•0•0•0•Updated Mar 23, 2026Mar 23, 2026
genomic-FM
Public
genomics representation-learning genetic-variants
genomics representation-learning genetic-variants foundation-models
Python
•4•32•1•0•Updated Mar 22, 2026Mar 22, 2026
DELBERT
Public
Fingerprint Language Modeling for Generalizable Hit Discovery in DNA-Encoded Libraries
Python
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Apache License 2.0
•0•0•0•0•Updated Mar 21, 2026Mar 21, 2026
BioReason-Pro
Public
BioReason-Pro: Advancing Protein Function Prediction with Multimodal Biological Reasoning
Jupyter Notebook
•8•76•0•0•Updated Mar 20, 2026Mar 20, 2026
MorphoDiff
Public
MorphoDiff is a diffusion based generative pipeline to predict high-resolution cell morphological responses under different conditions based on perturbation enc…
Python
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Apache License 2.0
•6•33•0•0•Updated Mar 20, 2026Mar 20, 2026
on-device-LLM
Public
Python
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Apache License 2.0
•2•1•0•1•Updated Mar 3, 2026Mar 3, 2026
MedRAX2
Public
MedRAX-2
Python
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Apache License 2.0
•197•22•2•2•Updated Mar 2, 2026Mar 2, 2026
FastSegmentator
Public
Python
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Apache License 2.0
•0•4•0•0•Updated Feb 24, 2026Feb 24, 2026
EchoJEPA
Public
EchoJEPA: A Latent Predictive Foundation Model for Echocardiography
Python
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Apache License 2.0
•40•268•5•0•Updated Feb 8, 2026Feb 8, 2026
ecg-fm
Public
An electrocardiogram analysis foundation model.
machine-learning healthcare transformer
machine-learning healthcare transformer electrocardiogram foundation-models mimic-iv-ecg physionet2021
Python
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MIT License
•24•257•1•0•Updated Jan 14, 2026Jan 14, 2026
BioReason
Public
BioReason: Incentivizing Multimodal Biological Reasoning within a DNA-LLM Model | NeurIPS '25
bioinformatics computational-biology dna
bioinformatics computational-biology dna reasoning foundation-models large-language-models grpo
Jupyter Notebook
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Apache License 2.0
•52•381•7•0•Updated Dec 22, 2025Dec 22, 2025
nnClass
Public
Python
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Apache License 2.0
•0•7•0•0•Updated Dec 11, 2025Dec 11, 2025
Orthrus
Public
Orthrus is a mature RNA model for RNA property prediction. It uses a mamba encoder backbone, a variant of state-space models specifically designed for long-se…
Python
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MIT License
•16•90•1•0•Updated Dec 10, 2025Dec 10, 2025
HIMF-Surv
Public
Hierarchical Intra- and Inter-Modality Fusion for Multimodal Survival Prediction in Prostate Cancer
Python
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Apache License 2.0
•0•2•0•0•Updated Dec 8, 2025Dec 8, 2025
JSC
Public
Joint segmentation and clasification for 3D medical images
Python
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Apache License 2.0
•0•8•0•0•Updated Dec 5, 2025Dec 5, 2025
Classifier3D
Public
0•0•0•0•Updated Dec 1, 2025Dec 1, 2025
scGPT
Public
gpt single-cell foundation-model
gpt single-cell foundation-model
Jupyter Notebook
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MIT License
•323•1.5k•168•8•Updated Nov 12, 2025Nov 12, 2025
MedRAX
Public
MedRAX: Medical Reasoning Agent for Chest X-ray - ICML 2025
agent medical healthcare
agent medical healthcare medical-imaging chest-xray chest-xrays reasoning-agent langchain agentic-framework agentic-ai
Python
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Apache License 2.0
•197•1.1k•2•1•Updated Oct 31, 2025Oct 31, 2025
trl
Public
Train transformer language models with reinforcement learning.
Python
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Apache License 2.0
•2.6k•0•0•2•Updated Sep 15, 2025Sep 15, 2025
AMOS-MM-Solution
Public
Solution to the AMOS-MM challenge
Python
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MIT License
•0•14•2•0•Updated Sep 13, 2025Sep 13, 2025
MedSAM2
Public
MedSAM2: Segment Anything in 3D Medical Images and Videos
Python
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Apache License 2.0
•115•585•10•1•Updated Jul 11, 2025Jul 11, 2025
vLLM
Public
A high-throughput and memory-efficient inference and serving engine for LLMs
Python
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Apache License 2.0
•15k•0•0•0•Updated Jun 13, 2025Jun 13, 2025
dnaBLT
Public
DNA Byte Latent Transformer.
Python
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BSD 3-Clause "New" or "Revised" License
•0•4•0•0•Updated Jun 7, 2025Jun 7, 2025
Ctrl-DNA
Public
Ctrl-DNA: Controllable Cell-Type-Specific Regulatory DNA Design via Constrained RL
Python
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Apache License 2.0
•2•17•1•0•Updated May 28, 2025May 28, 2025
IntegrAO
Public
Integrate Any Omics: Towards genome-wide data integration for patient stratification
Jupyter Notebook
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MIT License
•15•58•0•0•Updated May 19, 2025May 19, 2025
AGILE
Public
AGILE Platform: A Deep Learning-Powered Approach to Accelerate LNP Development for mRNA Delivery
Jupyter Notebook
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MIT License
•9•53•4•0•Updated May 16, 2025May 16, 2025
MedSAM
Public
Segment Anything in Medical Images
Jupyter Notebook
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Apache License 2.0
•572•4.2k•13•3•Updated May 7, 2025May 7, 2025
MedSAMSlicer
Public
3D Slicer Plugin for Segment anything in medical images
3d-slicer-extension
3d-slicer-extension
Python
•29•288•4•2•Updated Apr 7, 2025Apr 7, 2025
scGPT-spatial
Public
Jupyter Notebook
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MIT License
•14•132•10•0•Updated Feb 13, 2025Feb 13, 2025
AgentTutorial
Public
Jupyter Notebook
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Apache License 2.0
•2•8•0•0•Updated Feb 3, 2025Feb 3, 2025