Generates a graph and model for traits given a dependency matrix

Generates a graph and model for traits given a dependency matrix

amalgamate_deps(dep_mat)

Arguments

dep_mat

A dependency matrix

Value

A list of: $M Transition matrices for the Structured-Hidden State Markov Models that can be run in RevBayes, corHMM or other tools $graph The full graph of all dependencies among traits $con.comp A list of the group membership etc. produced by `igraph::components` $traits The old trait names that were amalgamated $new.traits The new names of the amalgamated trait names $depstates A list providing the dependencies of all characters

Details

The dependency matrix can come from `rphenoscape::pa_dep_matrix` or be user generated