Use generative ML to design new proteins using this simple, hackable implementation of protein transformer models

Loopy belief propagation for factor graphs on discrete variables in JAX

JAX - A curated list of resources https://github.com/google/jax

Evolution Strategies in JAX 🦎

This repository contains source code, examples and documentation for BooLSPLG-v0.3 (Boolean functions and S-box Parallel Library for GPU) CUDA Library

Code for the ProteinMPNN paper

Shared data types for building collaborative software

A Fast Hadamard Transform for Signals with Sub-linear Sparsity in the Transform Domain -- Implementation

Structured Neural Networks

Source code for analyses and to reproduce all figures in the following publication: An extension of the Walsh-Hadamard transform to calculate and model epistasis in genetic landscapes of arbitrary …

Differentiable ODE solvers with full GPU support and O(1)-memory backpropagation.

A curated list for awesome discrete diffusion models resources.

A Template to Publish Obsidian/Foam Notes on Github Pages (uses MkDocs)

Code for the tutorial/review paper for RL-based-fine-tuniing. In this code, we especially focus on the design of biological sequences like DNA (enhancers) and RNA (UTRs) design.

AeroSpace is an i3-like tiling window manager for macOS

🖥 Control your display's brightness & volume on your Mac as if it was a native Apple Display. Use Apple Keyboard keys or custom shortcuts. Shows the native macOS OSDs.

gReLU is a python library to train, interpret, and apply deep learning models to DNA sequences.

A Graph Neural Network Library in Jax

Repository for "Differentiable Causal Discovery from Interventional Data"

A library to model multivariate data using copulas.

Evolutionary couplings from protein and RNA sequence alignments

Inference of couplings in proteins and RNAs from sequence variation

A generative latent variable model for biological sequence families.

A list of deep learning implementations in biology