gRNAde is a Generative AI framework for inverse design of 3D RNA structure and function

Comparison of single-cell RNA Velocity methods in developmental contexts

Design scripts corresponding to "Computational design of sequence-specific DNA-binding proteins."

LaTeX Plugin for Adobe Illustrator

Step-by-step guide to install and configure AlphaFold 3 using a Conda Python 3.11 environment. No system-wide installations required. ✅ Miniconda setup & dependencies ✅ Repository cloning & model s…

Notebooks to follow along with "Deep Learning for Biology" Chapters 2 to 6.

Analyze data from cell line panels

AlphaFold 3 inference pipeline.

Blazing-Fast Bioinformatic Operations on Python DataFrames

Interaction Fingerprints for protein-ligand complexes and more

Gephi - The Open Graph Viz Platform

Geometric deep learning method to predict protein binding interfaces from a protein structure.

An R package to implement Differential Gene Set Enrichment Analysis (DGSEA): A statistical approach to quantify the relative enrichment of two gene sets.

pytorch dataloaders for single-cell perturbation data

A generalized computational framework for biomolecular modeling.

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

State is a machine learning model that predicts cellular perturbation response across diverse contexts

RNA-seq prediction with deep convolutional neural networks.

Machine learning methods for DNA sequence analysis.

This repository hosts a minimal version of a Python API for BPNet.

Transcript assembly and quantification for RNA-Seq

Official repository for the Boltz biomolecular interaction models

A database of paths that represent the mechanism of action from a drug to a disease in an indication.

Pytorch implementation of the Borzoi model from Calico, and Flashzoi, a 3x faster Borzoi enhancement.