- Preparing BPCFDB (Bacterial Plasmid and Chromosome Fragments DataBase)
- Determination of CGMs(Chromosome Gene Markers) and PGMs(Plasmid Gene Markers)
- Testing the workflow
- Identify PLSs by comparing input contigs with BPCFDB and PGMs/CGMs
- Clustering plasmid-like sequences into PLCs(Plasmid-Like clusters)
- Determining PLSs circular or not
- Manual check on NR gene annotation for plasmid backbone genes
- Determining conjugative/moblizable PLSs
- Accessory genes: ARGs/ Virulence genes/CAZymes