sfreemap.test.boxplot: Simulation free stochastic character maps on a phylogenetic...
In dpasqualin/sfreemap.tests: Tests for Sfreemap, the Simulation Free Stochastic Mapping

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

Description

sfreemap.test.boxplot(species=100
                        , Q_simmap='mcmc'
                        , Q_sfreemap='empirical'
					    , trees=NULL
                       	, n_trees=1
					    , nsim=50
				        , n_tests=5
					    , sample_freq=100
					    , save_to_file=TRUE
	  				    , ...)

`species`	The number of species in the simulated phylogeny
`Q_mcmc`	The transition rate matrix for simmap
`Q_sfreemap`	The transition rate matrix for sfreemap
`trees`	The trees to test on. Leave it NULL to test with random trees
`n_trees`	When trees=NULL you can choose how many random trees to generate
`nsim`	...
`n_tests`	number of tests to run, used to calculate the average
`sample_freq`	the frequency of samples taken form the markov chain
`save_to_file`	a boolean indicating whether to save the results into a file
`...`	more