This is the companion repo for the preprint Barcode aware adaptive sampling for Oxford Nanopore sequencers. It contains the data and code required for reproducing the figures and some of the analysis done.
Figures contained in the unused directory were used in the initial pre-print but not in the updated manuscript.
Some directories, which do not contain a jupyter notebook to generate images, should contain a README explaining how to generate the image.
The minimal environment required to run these notebooks is specified in the environment.yml file.
To create the environment use conda (or mamba) like so:
git clone https://github.com/LooseLab/barcode_paper_nb
cd barcode_paper_nb
conda env create -f environment.yml
conda activate rf_barcode_nb