molecular-biology

A Go package for engineering organisms.

👁️ Python library to plot DNA sequence features (e.g. from Genbank files)

3d engine implementation in DNA code!

Image-processing software for cryo-electron microscopy

Protein-protein, protein-peptide and protein-DNA docking framework based on the GSO algorithm

Terminal-based plasmid map viewer, sequence editor, and cloning/mutagenesis workbench in pure Python

Python module for prior knowledge integration. Builds databases of signaling pathways, enzyme-substrate interactions, complexes, annotations and intercellular communication roles.

Plasmid and primer design software

Package for processing and analyzing glycans and their role in biology.

A collection of simple JavaScript programs for generating, formatting, and analyzing short DNA and protein sequences. The Sequence Manipulation Suite is commonly used by molecular biologists, for teaching purposes, and for program and algorithm testing.

GPU-accelerated protein-ligand docking with automated pocket detection, exploring through multi-pocket conditioning. Official Implementation of PocketVina

Multiview Intercellular SpaTial modeling framework

This repository gives an overview of my teaching activities. Links to slides and data sets are included. Feel free to re-use my content.

The Blue Brain BioExplorer (BBBE) is a tool for data visualization experts and scientists to extract and analyze scientific data from visualization and interactive exploration

⚗️ Simple cloning simulator (Golden Gate etc.) for single and combinatorial assemblies

Accelerate Molecular Biology Research with Machine Learning

A toolkit for painting agent-based mesoscale molecular simulations and illustrations.

Python library that enables scripting access to CryoSPARC, a cryo-EM software package.

An AI-native molecular biology workbench for Claude Science: Claude opens sequence files and prepares analyses on request; you annotate, align, and review them in an interactive workspace.

A lua package for designing DNA.