Producing a model parameters file

Model parameters files and control files share the same structural elements. Some examples can be found in the data directory (*.model). Although it is quite easy to understand the content of a model parameters file without explanations when reading it, you might find it harder to produce your own file from scratch and without guidance if you want to initialise a substitution model with specific values. It is possible to use the simulate program to generate a stub of this file for each model implemented in the PHASE package. This skeleton can be modified easily to suit your needs. See htmlrefsimulate sectionUse_simulate for details.