Knox - A Genetic Design Space Repository

Quickstart

Docker Instructions

1. Install Docker Compose
2. Clone this repository
3. Run docker-compose up --build in the root directory of this repo
4. Open Knox web interface at http://localhost:8080

Non-Docker Instructions

1. Install Neo4J
2. Open the Desktop app and add a new project
3. Within the project, click "Add Graph", then create a local graph using "kn0x" as password
4. Click "Start"
5. Download and Install Maven
6. Clone this repository
7. Run mvn spring-boot:run in the root directory of this repo
8. Open Knox web interface at http://localhost:8080

Manuscript

Nicholas Roehner, James Roberts, Andrei Lapets, Dany Gould, Vidya Akavoor, Lucy Qin, D. Benjamin Gordon, Christopher Voigt, and Douglas Densmore. GOLDBAR: A Framework for Combinatorial Biological Design. ACS Synthetic Biology Article ASAP (2024).

DOI: https://pubs.acs.org/doi/full/10.1021/acssynbio.4c00296