⚠️There's a newer version (1.0.3) of this package.Take me there.

caper (version 0.5.2)

Comparative Analyses of Phylogenetics and Evolution in R

Description

Functions for performing phylogenetic comparative analyses.

Copy Link

Version

Install

install.packages('caper')

Monthly Downloads

1,672

Version

0.5.2

License

GPL (>= 2)

Maintainer

David Orme

Last Published

November 29th, 2013

Functions in caper (0.5.2)

BritishBirds

Conservation status of British birds (Thomas 2008)

IsaacEtAl

Example dataset for the caper package

pd.calc

Calculate and bootstrap phylogenetic diversity measurements.

syrphidae

The syrphidae dataset of Katzourakis et al. 2001

growTree

Tree simulation with traits.

macrocaic

Comparative analysis using independent contrasts on species richness data.

summary.caic

Summarize a crunch, brunch or macrocaic analysis

anova.caic

Anova and model checking methods for independent contrast models.

fuscoData

Example dataset for Fusco imbalance calculations

fusco.test

Imbalance statistics using Fusco and Cronk's method.

caic.diagnostics

Diagnostic tools for independent contrasts models

caic-class

The 'caic' S3 object class and methods

clade.members

Identify tips descended from a node

brunch

Comparative analysis using the brunch algorithm.

caper-benchmarks

Datasets used for benchmarking caper

phylo.d.subset

Calculates the phylogenetic D statistic across clades within a phylogeny

anova.pgls

Anova and AIC tables for 'pgls' models.

VCV.array

Create a 2D or 3D variance-covariance matrix from a phylogeny

crunch

Comparative analysis using the crunch algorithm.

perissodactyla

Example dataset for the CAIC package

phylo.d

Calculates the phylogenetic D statistic

caper-package

Comparative analysis of phylogenetics and evolution in R (caper)

clade.matrix

Create a clade matrix from a phylogeny

pgls.profile

Likelihood profiles and confidence intervals for 'pgls' models.

shorebird

Example dataset for the caper package

plot.pgls

Diagnostic plots for 'pgls' models.

pgls

Phylogenetic generalized linear models

pgls-methods

Generic model methods for 'pgls' models.

comparative.data

Comparative dataset creation