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phac-nml / mob-suite

MOB-suite: Software tools for clustering, reconstruction and typing of plasmids from draft assemblies
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Input fasta file #124

Closed Wendy361 closed 1 year ago

Wendy361 commented 1 year ago

Hi, I was wondering if mob-recon can accept fasta files from hybrid assembly. For each isolate, we did the both nanopore and illumina sequence and we used unicycler to assemble the nanopore and illumina fastq files for each isolate.

jrober84 commented 1 year ago

MOB-recon can accept draft or complete assemblies. It is much easier to work with complete plasmids than draft ones. There are a few caveats to be aware of. If your assemblies are complete, then there isn't really a need for reconstruction, you could just run mob-typer on everything but the chromosome. So there is no harm in running MOB-recon but it isn't necessary