Alexander Tong's repositories
conditional-flow-matching
TorchCFM: a Conditional Flow Matching library
MultiscaleEMD
Multiscale earth mover's distance methods for tree and manifold structured data
coinshuffle
Coin Shuffle implementation
trainable_symmetry
Implementation of learnable generalized geometric scattering transforms on graphs
chroma
A generative model for programmable protein design
esm
Evolutionary Scale Modeling (esm): Pretrained language models for proteins
FLeCS
Flexible and Learnable Cell Simulator
genie
De Novo Protein Design by Equivariantly Diffusing Oriented Residue Clouds
genie2
Protein structure diffusion model for unconditional protein generation and motif scaffolding
lightning-hydra-template
PyTorch Lightning + Hydra. A very user-friendly template for rapid and reproducible ML experimentation with best practices. ⚡🔥⚡
MELD
Quantifying experimental perturbations at single cell resolution
moscot
https://moscot.readthedocs.io/en/latest/
moscot_notebooks
Analysis notebooks using the moscot package
navigator-hugo
Navigator Business theme powered by Hugo. It also could be used for a personal portfolio.
ott
Optimal Transport tools implemented with the JAX framework, to get auto-diff, parallel and jit-able computations.
papers_for_protein_design_using_DL
List of papers about Proteins Design using Deep Learning
personal
Personal configuration files
safari
Convolutions for Sequence Modeling
statements
Successful Job Applications and Grants
torchdyn
A PyTorch library entirely dedicated to neural differential equations, implicit models and related numerical methods.