A family of codon-resolution language models trained on 130 million protein-coding sequences from over 20,000 species.

FlashRNA - An Efficient Model for Regulatory Genomics

Genomic Pre-trained Network

Analyses related to the Borzoi paper.

GAME was designed for the functional genomics community to create seamless communication across pre-trained models and genomics datasets. It is a product of the feedback from many model and dataset…

🧬 Generative modeling of regulatory DNA sequences with diffusion probabilistic models 💨

Genome modeling and design across all domains of life

AIDO.ModelGenerator is a software stack powering the development of an AI-driven Digital Organism (AIDO) by enabling researchers to adapt pretrained models and generate finetuned models for downstr…

Import a Slack export into a Discord server

Collection of mRNA benchmarks

This API provides programmatic access to the AlphaGenome model developed by Google DeepMind.

For fine-tuning Enformer using paired WGS & gene expression data

Splice-Alternative Profile Predictor (SpliceAPP)

Sequential regulatory activity predictions with deep convolutional neural networks.

RiboNN: predicting translation efficiencies from mRNA sequences

Python application to generate self-contained pages embedding IGV visualizations, with no dependency on original input files.

Orthrus is a mature RNA model for RNA property prediction. It uses a mamba encoder backbone, a variant of state-space models specifically designed for long-sequence data, such as RNA.

All code necessary for reconstructing Bonsai-trees on high-dimensional data and visualizing them in Bonsai-scout

WashU Epigenome Browser (3rd generation, since 2025)

BRAID is a department within Genentech dedicated to advancing biological and clinical sciences through artificial intelligence.

This project aims to collect the latest "call for reviewers" links from various top CS/ML/AI conferences/journals

Top open source software from the top 50 pharmaceutical companies

⚡ TabPFN: Foundation Model for Tabular Data ⚡

A modular framework for multimodal cross-cell-type transcriptional regulation models

accurate prediction of promoter activity and variant effects from massive parallel reporter assays

Computational Optimization of DNA Activity (CODA)

Chai-1, SOTA model for biomolecular structure prediction