get_infparams_optimx: Get the inferred parameters from an ML optimization
In BioGeoBEARS: BioGeography with Bayesian (and Likelihood) Evolutionary Analysis in R Scripts

Description Usage Arguments Details Value Note Author(s) References See Also Examples

View source: R/BioGeoBEARS_simulate_v1.R

This function extracts the ML parameter values, and associated statistics and codes, from the relprobs_matrix returned by bears_2param_standard_fast and similar functions.

1	get_infparams_optimx(results_object, inffn)

`results_object`	The results returned by `bears_2param_standard_fast` or a similar function.
`inffn`	The filename holding the results_object, which specifies which model was run.

The function has subroutines for recognizing a variety of currently-implemented models, assuming they used optimx internally to do the ML search. New models would require addition of new subroutines.

get_infparams_optimx and get_infparams_optimx_nosim differ only in the format of the filenames.

infparams The vector of inferred parameters.

Go BEARS!

Nicholas J. Matzke matzke@berkeley.edu

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

Matzke_2012_IBS

get_infparams_optimx_nosim, bears_2param_standard_fast, get_inf_LgL_etc_optimx

testval=1

Loading required package: rexpokit
Loading required package: cladoRcpp
Loading required package: ape
Loading required package: phylobase

Attaching package: 'phylobase'

The following object is masked from 'package:ape':

    edges