Test-cases about how to perform analysis with PHONEMeS-ILP from Gjerga et.al. 2021 for each of it’s variants have been provided on the documentation of the package here.

Another step-by-step guide with an example about how we can use the original implementation from Terfve et.al. 2015 (PHONEMeS-stoch) in a cluster environment can be found here