define_BioGeoBEARS_model_object: Define a BioGeoBEARS_model class and object

In BioGeoBEARS: BioGeography with Bayesian (and Likelihood) Evolutionary Analysis in R Scripts

Description

Class BioGeoBEARS_model is an extension of the data.frame class. It is used for holding discrete geographic range data for the tips on a phylogeny. Geographic ranges are represented with bit encoding (0/1) indicating absence or presence in each possible area.

Usage

  define_BioGeoBEARS_model_object(minval_anagenesis = 1e-15,
    minval_cladogenesis = 1e-05, maxval = 5)

Arguments

minval_anagenesis	Minimum value above zero for d, e, a, b parameters.
minval_cladogenesis	Minimum value above zero for j, v, etc.
maxval	Maximum value for d, e, a

Details

This is just a data.frame with: rows = taxanames
columns = area names
cells = 0/1 representing empty/occupied

Value

BioGeoBEARS_model_object The BioGeoBEARS_model object, of class BioGeoBEARS_model

Note

Go BEARS!

Author(s)

Nicholas J. Matzke [e-mail]

References

http://phylo.wikidot.com/matzke-2013-international-biogeography-society-poster

Matzke_2012_IBS

See Also

areas_list_to_states_list_old, areas_list_to_states_list_new

Examples

testval=1
BioGeoBEARS_model_object = define_BioGeoBEARS_model_object()
BioGeoBEARS_model_object
define_BioGeoBEARS_model_object()

BioGeoBEARS documentation built on May 29, 2017, 8:36 p.m.