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

Framework for Data-Driven Design & Analysis of Structures & Materials (F3DASM)

Python Library for learning (Structure and Parameter), inference (Probabilistic and Causal), and simulations in Bayesian Networks.

Tokenizers and Machine Learning Models for biological sequence data

A Python module for getting the GPU status from NVIDA GPUs using nvidia-smi programmically in Python

Kolmogorov Arnold Networks

A JAX research toolkit for building, editing, and visualizing neural networks.

Plausibility checks for generated molecule poses.

A conda-forge distribution.

Fast Differentiable Sorting and Ranking

A package for statistically rigorous scientific discovery using machine learning. Implements prediction-powered inference.

Manipulate JSON-like data with NumPy-like idioms.

A generative model for programmable protein design

Linear solvers in JAX and Equinox. https://docs.kidger.site/lineax

A curated list of resources about generative flow networks (GFlowNets).