Analysis of Congruent Diversification Classes

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Documentation for package ‘ACDC’ version 1.0.0

• DESCRIPTION file.
• Package NEWS.

Help Pages

ACDC-package	ACDC: Analysis of Congruent Diversification Classes
ACDC	ACDC: Analysis of Congruent Diversification Classes
congruent.models	Create a set of congruent models
create.model	Computes the congruent class, i.e., the pulled rates.
model2df	model2df
plot.ACDC	Plots the rate functions including the pulled rates.
plot.ACDCset	Plots the rate functions
primates	Primates phylogenetic tree
primates_ebd	RevBayes Primates birth-death model
primates_ebd_log	Primates birth-death model
primates_ebd_tess	TESS Primates birth-death model
primates_ebd_treepar	TreePar Primates birth-death model
print.ACDC	Print method for ACDC object
print.ACDCposterior	Title
print.ACDCset	Print method for ACDCset object
print.ACDCsets	print.ACDCsets
read.RevBayes	read RevBayes log file
sample.basic.models	Samples simple increase/decrease models through time with noise.
sample.congruence.class	Stochastic exploration of congruent models.
sample.congruence.class.posterior	Stochastic exploration of congruent models for all samples in the posterior
sample.rates	Sample custom functions through time.
summarize.posterior	Summarize trends in the posterior
summarize.trends	Summarize trends in the congruence class