A Snakemake workflow for calling extrachromosomal circular DNA in Illumina short-read sequencing data with Circle-Map.
The usage of this workflow is described in the Snakemake Workflow Catalog.
If you use this workflow in a paper, don't forget to give credits to the authors by citing the URL of this (original) dna-seq-short-read-circle-mapsitory and its DOI (see above).