Constraints¶
-
class
Constraints(taxNames, constraintTree)[source]¶ A container for tree topology constraints.
- taxNames
A list of taxNames in the same order as in the data or alignment, and the same order as in other tree or trees objects.
- constraintTree
A partially resolved tree object that describes the constraints. You need to include all the taxNames.
For example:
tNames = ['A', 'B', 'C', 'D', 'E'] read('(A, B, (E, D), C);') constTree = var.trees.pop() c = Constraints(tNames, constTree) t = p4.func.randomTree(taxNames=tName, constraints=c)
You can pass a Constraints object to p4.func.randomTree() and Mcmc() to enforce constraints.