Synthetic biology (SynBio) is a multidisciplinary area of research that seeks to create new biological parts, devices, and systems, or to redesign systems that are already found in nature.
Genetic circuit design automation
A Go package for engineering organisms.
👁️ Python library to plot DNA sequence features (e.g. from Genbank files)
✏️ A versatile DNA sequence optimizer
BGC Detection and Classification Using Deep Learning
CodonTransformer: The ultimate tool for codon optimization, optimizing DNA sequences for heterologous protein expression across 164 species.
Official and maintained implementation of the paper "Attention-Based Transformers for Instance Segmentation of Cells in Microstructures" [BIBM 2020].
Open source biolab
Computational synthetic biology: Predicting DNA edits for bioengineering
For finding, sharing and exchanging Data, Models, Simulations and Processes in Science.
The resources I always recommend to new synthetic biologists.
Web application enabling users and software to browse, upload, and share synthetic biology designs
Cello v2 is the continuation of the Cello genetic circuit design software.
⚗️ Simple cloning simulator (Golden Gate etc.) for single and combinatorial assemblies
Reinforcement Learning based bioretrosynthesis tool
🤖 Python biolab automation library: parsers, report generators, picklist simulators, and more
💠 Find common blocks and differences between DNA sequences
👾 Generate identicons for DNA sequences with Python
teemi: A Python package for reproducible and FAIR microbial strain construction. Simulate the entire dbtl-cycle, generate genetic parts, design libraries, and track samples. Open-source Python platform for workflow flexibility and automated tasks, accelerating metabolic engineering. Try teemi with our Google Colab notebooks!