snap-stanford

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89 repositories

Biomni
Public
Biomni: a general-purpose biomedical AI agent
agent ai biomedicine
Python
•
Apache License 2.0
•376•2.3k•31•7•Updated Oct 27, 2025Oct 27, 2025
relbench
Public
RelBench: Relational Deep Learning Benchmark
Python
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MIT License
•72•303•0•0•Updated Oct 27, 2025Oct 27, 2025
relational-transformer
Public
Relational Transformer: Toward Zero-Shot Foundation Models for Relational Data
Rust
•5•13•0•0•Updated Oct 23, 2025Oct 23, 2025
optimas
Public
Optimize Any User-defined Compound AI Systems
optimization multiagent-systems reward-learning compound-ai-systems
Python
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Apache License 2.0
•6•60•2•1•Updated Aug 18, 2025Aug 18, 2025
stark
Public
(NeurIPS D&B 2024) STaRK: Benchmarking LLM Retrieval on Textual and Relational Knowledge Bases
nlp information-retrieval graph knowledge-base semi-structured-data multimodal llm
Python
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MIT License
•45•323•1•1•Updated Jul 21, 2025Jul 21, 2025
relgt
Public
Relational Graph Transformer
transformers relational-databases graph-neural-networks relational-deep-learning graph-transformer
Python
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MIT License
•11•49•0•0•Updated Jul 10, 2025Jul 10, 2025
BioDiscoveryAgent
Public
BioDiscoveryAgent is an LLM-based AI agent for closed-loop design of genetic perturbation experiments
Python
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MIT License
•21•90•1•0•Updated Jul 6, 2025Jul 6, 2025
llm-social-network
Public
Jupyter Notebook
•6•25•0•0•Updated Jun 30, 2025Jun 30, 2025
RelGNN
Public
[ICML 2025] RelGNN: Composite Message Passing for Relational Deep Learning
Python
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MIT License
•1•10•1•0•Updated Jun 12, 2025Jun 12, 2025
stage-gnn
Public
Python
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MIT License
•0•4•0•0•Updated Jun 12, 2025Jun 12, 2025
ogb-web
Public
OGB website
SCSS
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MIT License
•1•0•0•0•Updated May 19, 2025May 19, 2025
POPPER
Public
Automated Hypothesis Testing with Agentic Sequential Falsifications
agent hypothesis-testing llm ai-for-science
Python
•24•230•4•1•Updated May 14, 2025May 14, 2025
ogb
Public
Benchmark datasets, data loaders, and evaluators for graph machine learning
deep-learning datasets graph-machine-learning graph-neural-networks
Python
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MIT License
•406•2k•33•6•Updated May 6, 2025May 6, 2025
GreaseLM
Public
[ICLR 2022 spotlight]GreaseLM: Graph REASoning Enhanced Language Models for Question Answering
knowledge-graph question-answering language-model commonsense-reasoning graph-neural-networks biomedical-ques
Python
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MIT License
•43•239•14•0•Updated Apr 23, 2025Apr 23, 2025
planet
Public
PlaNet: Predicting population response to drugs via clinical knowledge graph
knowledge-graph language-model graph-neural-networks biomedicine
Python
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MIT License
•5•31•0•0•Updated Mar 13, 2025Mar 13, 2025
KGWAS
Public
KGWAS: novel genetics discovery enabled by massive functional genomics knowledge graph
ai genetics knowledge-graph functional-genomics
Python
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MIT License
•8•74•5•2•Updated Mar 7, 2025Mar 7, 2025
precice
Public
Jupyter Notebook
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MIT License
•1•7•1•0•Updated Mar 5, 2025Mar 5, 2025
UCE
Public
UCE is a zero-shot foundation model for single-cell gene expression data
Python
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MIT License
•37•224•0•1•Updated Feb 27, 2025Feb 27, 2025
supply-chains
Public
Python
•1•12•1•1•Updated Feb 25, 2025Feb 25, 2025
GEARS
Public
GEARS is a geometric deep learning model that predicts outcomes of novel multi-gene perturbations
Python
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MIT License
•69•303•16•2•Updated Feb 1, 2025Feb 1, 2025
ViRel
Public
ViRel: Unsupervised Visual Relations Discovery with Graph-level Analogy
machine-learning graph representation-learning unsupervised-learning reasoning graph-neural-networks
Python
•5•10•2•1•Updated Aug 10, 2024Aug 10, 2024
relbench-user-study
Public
Python
•5•3•2•0•Updated Aug 7, 2024Aug 7, 2024
SATURN
Public
Jupyter Notebook
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MIT License
•24•142•0•0•Updated Jul 3, 2024Jul 3, 2024
neural-subgraph-learning-GNN
Public
Jupyter Notebook
•72•362•21•3•Updated Jun 25, 2024Jun 25, 2024
MLAgentBench
Public
Python
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MIT License
•59•312•4•2•Updated Jun 19, 2024Jun 19, 2024
ipf-network-inference
Public
Jupyter Notebook
•2•0•0•0•Updated Jun 18, 2024Jun 18, 2024
plato
Public
Python
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MIT License
•3•69•1•0•Updated Mar 22, 2024Mar 22, 2024
UCE_decoder
Public
Jupyter Notebook
•1•0•0•0•Updated Feb 2, 2024Feb 2, 2024
le_pde
Public
LE-PDE accelerates PDEs' forward simulation and inverse optimization via latent global evolution, achieving significant speedup with SOTA accuracy
deep-learning accelerate pde latent-space surrogate-models inverse-optimization
Jupyter Notebook
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MIT License
•5•30•0•0•Updated Jan 30, 2024Jan 30, 2024
lamp
Public
[ICLR23] First deep learning-based surrogate model that jointly learns the evolution model and optimizes computational cost via remeshing
reinforcement-learning physics-simulation multi-resolution controllable learned-simulation mesh-based
Python
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MIT License
•5•41•0•0•Updated Jan 30, 2024Jan 30, 2024