Open source code for AlphaFold 2.
Repository Index
47,133 repositories indexed
1–21 of 21 · Most stars
A Python implementation of global optimization with gaussian processes.
- optimization
- gaussian-processes
- bayesian-optimization
- python
AlphaFold 3 inference pipeline.
Python framework for creating, editing, and running Noisy Intermediate-Scale Quantum (NISQ) circuits.
- nisq
- quantum-algorithms
- quantum-computing
- cirq
Optax is a gradient processing and optimization library for JAX.
Deep probabilistic analysis of single-cell and spatial omics data
- scrna-seq
- variational-bayes
- variational-autoencoder
- cite-seq
A research toolkit for particle swarm optimization in Python
- particle-swarm-optimization
- optimization-tools
- pso
- global-optimization
Python+Numpy+OpenGL: fast, scalable and beautiful scientific visualization
Python package for graph neural networks in chemistry and biology
- deep-learning
- graph-neural-networks
- dgl
- cheminformatics
An open library for the analysis of molecular dynamics trajectories
- molecular-dynamics
- python
- mdtraj
- rmsd
A Python package to visualise neuroanatomical data in atlas space
- neuroscience
- python
- anatomy
- visualization
Graph-linked unified embedding for single-cell multi-omics data integration
- bioinformatics
- deep-learning
- single-cell
- single-cell-multiomics
Automated 3D cell detection in very large images
- microscopy
- cell-detection
- deep-learning
- image-analysis
A Python interface to access neuroanatomical atlases
- neuroscience
- python
- microscopy
- registration
Automated 3D brain registration with support for multiple species and atlases.
- registration
- atlases
- brain
- neuroscience
A strongly-typed genetic programming framework for Python
- python
- ipynb
- genetic-programming
- framework
CASSIA: A Multi-Agent LLM-Based Single-Cell Cell Type Annotation Framework
- ai4science
- llm
- multiagent-systems
- prompt-engineering
Autonomous multi-agent framework to optimize scientific software
- acceleration
- agentic-ai
- ai-agents
- bioinformatics
MCP server for spatial transcriptomics analysis through natural language interfaces.
- bioinformatics
- cell-communication
- deconvolution
- machine-learning
Multigrate: multiomic data integration for single-cell genomics
Fast, deterministic cell-type deconvolution for million-bin spatial transcriptomics
- bioinformatics
- cell-type-deconvolution
- computational-biology
- deconvolution