sensi_plot.sensiInflu.TraitEvol: Graphical diagnostics for class 'sensiInflu.TraitEvol'

In paternogbc/sensiPhy: Sensitivity Analysis for Comparative Methods

Description

sensi_plot.sensiTree.TraitEvol Plot results from influ_discrete and influ_continuous.

Usage

## S3 method for class 'sensiInflu.TraitEvol'
sensi_plot(x, graphs = "all", ...)

Arguments

x	output from influ_discrete or influ_continuous
graphs	choose which graph should be printed in the output ("all", "q12", "q21", "aic" or" "optpar")
...	further arguments to methods

Author(s)

Gijsbert Werner

See Also

ggplot, influ_discrete influ_continuous

The following graphs are printed.

Graph aicc: Distribution of estimated AICc-values across all single-species deletions. Red vertical line represents the mean signal among all estimates. Blue vertical line represents the median signal among all estimates.

Graph optpar: Distribution of estimated values for optimisation parameter specified using 'transform' (if applicable) Red vertical line represents the mean signal among all estimates. Blue vertical line represents the median signal among all estimates.

Additionally, only for tree_discrete the function creates the following graphs.

Graph q12: Distribution of estimated parameter values for transition rates q12 across all single-species deletions. Red vertical line represents the mean signal among all estimates. Blue vertical line represents the median signal among all estimates.

Graph q21: Distribution of estimated parameter values for transition rates q21. Red vertical line represents the mean signal among all estimates. Blue vertical line represents the median signal among all estimates.

While only for tree_continuous the function creates the following graphs.

Graph sigsq: Distribution of estimated parameter values for rate of evolution sigsq across all single-species deletions. . Red vertical line represents the mean signal among all estimates. Blue vertical line represents the median signal among all estimates.

Graph z0: Distribution of estimated parameter values for z0. Red vertical line represents the mean signal among all estimates. Blue vertical line represents the median signal among all estimates.

paternogbc/sensiPhy documentation built on June 14, 2020, 10:07 a.m.