PopPUNK now has a lot of different models available, which can make it hard to know where to start, or to tell if you’ve done the right thing when fitting one to your data. Some questions I’ll address: Do you need to fit a new model? Should I subsample my data? Which model should I use? Are my clusters correct? My clusters don’t match MLST/CC tl;dr Don’t fit a model if you don’t have to.