I am working on a project to determine antibiotic resistance origins in E. coli. We have amplified 7 housekeeping genes using PCR and sequenced the product on Nanopore MINIon. I would like to determine the MLST profile for each isolate. I have 1 run for a barcoded 96 well plate with each well with one isolate. basecalling and demultiplexing are already done. I am not being able to move further.
Thank you for the help