🤗 Transformers: State-of-the-art Machine Learning for Pytorch, TensorFlow, and JAX.

Get up and running with Llama 3.3, DeepSeek-R1, Phi-4, Gemma 2, and other large language models.

Numerical differential equation solvers in JAX. Autodifferentiable and GPU-capable. https://docs.kidger.site/diffrax/

A PyTorch-based End-to-End Predict-then-Optimize Library for Linear and Integer Programming

A parallel ODE solver for PyTorch

Code for our paper "Hamiltonian Neural Networks"

Simulation-based inference toolkit

R client for the OmniPath web service

A VIM-inspired filemanager for the console

PyComplexHeatmap: A Python package to plot complex heatmap (clustermap)

Software for the visualization of sequence-function relationships

A manifold optimization library for deep learning

ROPTLIB: Riemannian Manifold Optimization Library

Non-Linear Least Squares Minimization, with flexible Parameter settings, based on scipy.optimize, and with many additional classes and methods for curve fitting.

This repository contains implementations and illustrative code to accompany DeepMind publications

cfDNApipe: A comprehensive quality control and analysis pipeline for cell-free DNA high-throughput sequencing data

SAM: Sharpness-Aware Minimization (PyTorch)

propensity score matching in python

A hybrid method for causal effect estimation

PhysiBoSS 2.0: a sustainable integration of stochastic Boolean and agent-based modelling frameworks

the official implementation of NeuronRep

Graspot: A graph attention network for spatial transcriptomics data integration with optimal transport

CellNeighborEX: Deciphering Neighbor-Dependent Gene Expression from Spatial Transcriptomics Data

A tool to detect tissue- and cancer- specific epigenetic signatures in WGS data of liquid biopsies