v1.3.0 (2023-10-24)

• plassembler long should yield improved results. It achieves this by treating long reads as both short reads (in the sense of creating a de Brujin graph based assembly) and long reads (for scaffolding) in Unicycler.
• While I'd still recommend short reads if you can get them, I am now confident that if your isolate has small plasmids in the long read set, plassembler long should find them.
• For more information, see the documentation.
• The ability to specify a --flye_assembly and --flye_info if you already have a Flye assembly for your long reads instead of --flye_directory has been added. Thanks to @incoherentian 's issue
• The ability to specify a --no_copy_numbers with plassembler assembled if you just want to run some plasmids against the PLSDB has been added. Thanks to @gaworj 's issue.