Megalodon is a research command line tool to extract high accuracy modified base and sequence variant calls from raw nanopore reads by anchoring the information rich basecalling neural network out…

Mamba SSM architecture

Implementation of Nougat Neural Optical Understanding for Academic Documents

Keras documentation, hosted live at keras.io

Code used by the "Clifford Group Equivariant Neural Networks" paper.

cuDF - GPU DataFrame Library

ChemNLP project

Model interpretability and understanding for PyTorch

Conda recipes for the bioconda channel.

Turns Data and AI algorithms into production-ready web applications in no time.

A logical, reasonably standardized, but flexible project structure for doing and sharing data science work.

DODO is a Python package for taking an AF2 structure and redesigning the IDRs to look more 'IDR like'.

Machine Learning Engineering Open Book

Machine learning glossary

A curated list of awesome self-supervised methods

Code and data accompanying https://doi.org/10.1016/j.csbj.2024.09.007

A list of manuscripts/tools using diffusion on biological enttieis

N-D labeled arrays and datasets in Python

⚡ A Fast, Extensible Progress Bar for Python and CLI

Python logging made (stupidly) simple

🍦 Never use print() to debug again.

Generation of protein sequences and evolutionary alignments via discrete diffusion models

Compositional Linear Algebra

Verty short course on evolutionary game theory

A machine learning compiler for GPUs, CPUs, and ML accelerators

Pax is a Jax-based machine learning framework for training large scale models. Pax allows for advanced and fully configurable experimentation and parallelization, and has demonstrated industry lead…

VICRegL official code base

A Python implementation of the DESeq2 pipeline for bulk RNA-seq DEA.