Ray is an AI compute engine. Ray consists of a core distributed runtime and a set of AI Libraries for accelerating ML workloads.

Composable transformations of Python+NumPy programs: differentiate, vectorize, JIT to GPU/TPU, and more

Python logging made (stupidly) simple

instant coding answers via the command line

Statsmodels: statistical modeling and econometrics in Python

Bayesian Modeling and Probabilistic Programming in Python

A functional standard library for Python.

Command line driven CI frontend and development task automation tool.

With Holoviews, your data visualizes itself.

Gin provides a lightweight configuration framework for Python

Single-cell analysis in Python. Scales to >1M cells.

Integration of IPython pdb

Deep probabilistic analysis of single-cell and spatial omics data

🧬 gget enables efficient querying of genomic reference databases

scikit-bio: a community-driven Python library for bioinformatics, providing versatile data structures, algorithms and educational resources.

A comprehensive library for computational molecular biology

Gene Set Enrichment Analysis in Python

Optimal transport tools implemented with the JAX framework, to get differentiable, parallel and jit-able computations.

Performant Pythonic GenomicRanges

Inclusive model of expression dynamics with conventional or metabolic labeling based scRNA-seq / multiomics, vector field reconstruction and differential geometry analyses

ENCODE ATAC-seq pipeline

Graph-linked unified embedding for single-cell multi-omics data integration

CellRank: dynamics from multi-view single-cell data

PyStan, a Python interface to Stan, a platform for statistical modeling. Documentation: https://pystan.readthedocs.io

Deep count autoencoder for denoising scRNA-seq data

Single-cell epigenomics analysis tools

Official repository for the paper "Large-scale clinical interpretation of genetic variants using evolutionary data and deep learning". Joint collaboration between the Marks lab and the OATML group.

WGBS/NOMe-seq Data Processing & Differential Methylation Analysis

Multi-omic single-cell optimal transport tools