plot_logLik function

Plot Log-Likelihood function of the model

plot_logLik(x, sets, ...)

## S3 method for class 'aphylo'
plot_logLik(x, sets, ...)

## S3 method for class 'formula'
plot_logLik(x, sets, ...)

## S3 method for class 'aphylo_estimates'
plot_logLik(x, sets, ...)

Arguments

• x: An object of class aphylo()
• sets: (optional) Character matrix of size 2 x # of combinations. contains the names of the pairs to plot. If nothing passed, the function will generate all possible combinations as combn(names(params), 2).
• ...: Aditional parameters to be passed to plotfun.

Returns

NULL (invisible). Generates a plot of the loglikelihood of the model.

Examples

# Loading data
data(fakeexperiment)
data(faketree)
O <- new_aphylo(fakeexperiment[,2:3], tree = as.phylo(faketree))

# Baseline plot (all parameters but Pi)
plot_logLik(O)

# No psi parameter
plot_logLik(O ~ mu_d + Pi + eta)