Democratizing AI scientists with ToolUniverse

Benchmark agents on BioML tasks

Pantheon-CLI, our first release of PantheonOS, the AgentOS that re-imagines Science

A python library for multi omics included bulk, single cell and spatial RNA-seq analysis.

Arc Virtual Cell Atlas

TxAgent: An AI Agent for Therapeutic Reasoning Across a Universe of Tools

Pathology Foundation Model - Nature Medicine

UCE is a zero-shot foundation model for single-cell gene expression data

ProCyon: A multimodal foundation model for protein phenotypes

SPECTRA: Spectral framework for evaluation of biomedical AI models

scCIPHER: Contextual deep learning on single-cell-enriched knowledge graphs in neurological disorders

A unified multi-task time series model.

Mamba SSM architecture

Course to get into Large Language Models (LLMs) with roadmaps and Colab notebooks.

Contextual AI models for single-cell protein biology

Therapeutics Commons (TDC): Multimodal Foundation for Therapeutic Science

Harmonization tools for multi-site neuroimaging analysis. Implemented as a python package. Harmonization of MRI, sMRI, dMRI, fMRI variables with support for NIFTI images. Complements the work in Ne…

Precision Medicine Knowledge Graph (PrimeKG)

🤗 PEFT: State-of-the-art Parameter-Efficient Fine-Tuning.

Machine Learning for Neuroscience Module, Spring 2023 (https://www.imperial.ac.uk/study/courses/postgraduate-taught/translational-neuroscience/)

🍇 GRAPE is a Rust/Python Graph Representation Learning library for Predictions and Evaluations

RCDS Introduction to Julia 3-day Course

OBO-formatted ontologies → networkx (Python 3)

Python library to handle Gene Ontology (GO) terms

Software "Disease_ontologies_for_knowledge_graphs" - a knowledge base solution that uses Grakn core and disease ontologies cross-references to allow easy switch between ontology hierarchies for dat…

The multiplex network of human diseases

Mondo Disease Ontology