PHYLOGR (version 1.0.11)

Functions for Phylogenetically Based Statistical Analyses

Description

Manipulation and analysis of phylogenetically simulated data sets and phylogenetically based analyses using GLS.

Copy Link

Version

Install

install.packages('PHYLOGR')

Monthly Downloads

255

Version

1.0.11

License

GPL (>= 2)

Maintainer

Ramon Diaz-Uriarte

Last Published

April 14th, 2020

Functions in PHYLOGR (1.0.11)

print.summary.phylog

Printing summaries of PHYLOGR statistical functions

prcomp.phylog

Principal Components Analysis from Simulated Data Sets

cancor.phylog

Canonical Correlation Analysis from Simulated Data Sets

Lacertid.varcov

Variance-covariance matrix for lacertids from Bauwens and Diaz-uriarte (1997)

read.phylip.data

Read Phylip Infile Data Files

cor.origin

Correlation Through the Origin

GarlandJanis.Original

Garland \& Janis's 1993 data on mammalian running speed and limb length

GarlandJanis.IC

Independet contrasts for Garland \& Janis data set

matrix.D

Produce the Matrix D of Garland and Ives (2000) for GLS

Lacertid.Original

Bauwens and Diaz-Uriarte (1997) lacertid data

Lacertid.IC

Independet contrasts for Bauwens and Diaz-Uriarte (1997) lacertid data set

read.phylog.matrix

Read a Phylogenetic Covariance Matrix

SimulExample

A simulated data set

plot.phylog.cancor

Plot a phylog.cancor object

summary.phylog.cancor

Summarize a phylog.cancor object

lm.phylog

Linear Models from Simulated Data Sets

read.pdi.data

Read Pdi Data Files

summary.phylog.prcomp

Summarize a phylog.prcomp object

summary.phylog.lm

Summarize a phylog.lm object

phylog.gls.fit

Phylogenetically-Based GLS Model Fitting

plot.phylog.lm

Plot a phylog.lm object

plot.phylog.prcomp

Plot a phylog.prcomp object

read.sim.data

Read Sim Files From PDSIMUL

read.inp.data

Read Inp Data Files

GarlandJanis.varcov

Phylogenetic variance-covariance matrix for Garland \& Janis (1993).

Helper.functions

Helper functions