Starred repositories
End-to-end breast cancer classification (binary + multiclass) — PyTorch · Java backend · web frontend
Implementation of GeoDiff: a Geometric Diffusion Model for Molecular Conformation Generation (ICLR 2022).
Official repository for the ProteinGym benchmarks
COBRApy is a package for constraint-based modeling of metabolic networks.
Interactive network visualization in Python and Dash, powered by Cytoscape.js
A publicly-editable collection of open computational neuroscience resources
A high-performance, Pythonic language for bioinformatics
OpenChem: Deep Learning toolkit for Computational Chemistry and Drug Design Research
Working with molecular structures in pandas DataFrames
A comprehensive library for computational molecular biology
A list of schools and researchers in computational neuroscience
WebGL accelerated JavaScript molecular graphics library
SimTK OpenSim C++ libraries and command-line applications, and Java/Python wrapping.
scikit-bio: a community-driven Python library for bioinformatics, providing versatile data structures, algorithms and educational resources.
Implementation of DiffDock: Diffusion Steps, Twists, and Turns for Molecular Docking
Fast and accurate gene fusion detection from RNA-Seq data
minimal example implementations for bioinformatics workflow managers
zUMIs: A fast and flexible pipeline to process RNA sequencing data with UMIs
Single-cell RNA-Seq pipeline for barcode-based protocols such as 10x, DropSeq or SmartSeq, offering a variety of aligners and empty-droplet detection
Table of software for the analysis of single-cell RNA-seq data.
Customizable workflows based on snakemake and python for the analysis of NGS data
A repository for setting up a RNAseq workflow
NicheNet: predict active ligand-target links between interacting cells
A Python implementation of the DESeq2 pipeline for bulk RNA-seq DEA.