This tool implements an alogrithm to recycle fragments for modular DNA assembley. For details, see Öling et al ("FRAGLER: A Fragment Recycler Application Enabling Rapid and Scalable Modular DNA Assembly").
The tool uses conda to manage its dependencies. Follow installation instructions in either the official conda repository or any other conda flavour. We recommend mamba as a drop-in replacement for conda.
The tool is also dependent on acces to the GeneArt API (https://www.thermofisher.com/se/en/home/life-science/cloning/gene-synthesis/geneart-gene-synthesis.html) and requires an access key. To obtain an access key, see instructions http://assets.thermofisher.com/TFS-Assets/BID/Reference-Materials/geneart-gene-synthesis-api-presentation.pdf and contact geneartapi@thermofisher.com
- Clone the repo:
git@github.com:DS-QuBi/golden-gate-cloning.git- Install dependencies
cd golden-gate-cloning
conda env create -f environment.yaml -n golden-gate-cloning- Activate conda environment
conda activate golden-gate-cloning- Start the server
bash start_server.sh- Access the app through a browser using the url reported in the previous step