Is anyone familiar with how to run Mugsy with options passed to nucmer using the flag -nucmeropts? I tried using the syntax provided in the mugsy README with their example being -nucmeropts "-l 15" but this doesn't work and just yields "Unknown option: 15" in the stderr. I've tried several variations of the syntax to no avail. I'm looking for anyone who has successfully run mugsy while passing -nucmeropts.
Thanks!
Thanks!