Simulating dataΒΆ

The ability to simulate data is useful in many contexts. You can only simulate into an existing Data object, and so if you want to simulate a new data set, you need to make a blank Data object in which to simulate. You can make one or more new empty alignments and make a Data object like this:

a = func.newEmptyAlignment(dataType='dna', taxNames=myTaxNames, length=200)
d = Data([a])

Then you can attach that Data object to a tree, define a model, and simulate with the Tree simulate() method.

This week, it uses the random() function in stdlib. You can reseed it by, for example:

func.reseedCRandomizer(os.getpid())