PHYLOGR: Functions for Phylogenetically Based Statistical Analyses
Version 1.0.8

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

AuthorRamon Diaz-Uriarte <rdiaz@cnio.es> and Theodore Garland, Jr <theodore.garland@ucr.edu>
Date of publication2014-11-10 01:39:39
MaintainerRamon Diaz-Uriarte <rdiaz02@gmail.com>
LicenseGPL (>= 2)
Version1.0.8
URL http://ligarto.org/rdiaz
Package repositoryView on CRAN
InstallationInstall the latest version of this package by entering the following in R:
install.packages("PHYLOGR")

Popular man pages

cor.origin: Correlation Through the Origin
GarlandJanis.varcov: Phylogenetic variance-covariance matrix for Garland & Janis...
Lacertid.IC: Independet contrasts for Bauwens and Diaz-Uriarte (1997)...
phylog.gls.fit: Phylogenetically-Based GLS Model Fitting
read.phylog.matrix: Read a Phylogenetic Covariance Matrix
summary.phylog.cancor: Summarize a phylog.cancor object
summary.phylog.prcomp: Summarize a phylog.prcomp object
See all...

All man pages Function index File listing

Man pages

cancor.phylog: Canonical Correlation Analysis from Simulated Data Sets
cor.origin: Correlation Through the Origin
GarlandJanis.IC: Independet contrasts for Garland & Janis data set
GarlandJanis.Original: Garland & Janis's 1993 data on mammalian running speed and...
GarlandJanis.varcov: Phylogenetic variance-covariance matrix for Garland & Janis...
Helper.functions: Helper functions
Lacertid.IC: Independet contrasts for Bauwens and Diaz-Uriarte (1997)...
Lacertid.Original: Bauwens and Diaz-Uriarte (1997) lacertid data
Lacertid.varcov: Variance-covariance matrix for lacertids from Bauwens and...
lm.phylog: Linear Models from Simulated Data Sets
matrix.D: Produce the Matrix D of Garland and Ives (2000) for GLS
phylog.gls.fit: Phylogenetically-Based GLS Model Fitting
plot.phylog.cancor: Plot a phylog.cancor object
plot.phylog.lm: Plot a phylog.lm object
plot.phylog.prcomp: Plot a phylog.prcomp object
prcomp.phylog: Principal Components Analysis from Simulated Data Sets
print.summary.phylog: Printing summaries of PHYLOGR statistical functions
read.inp.data: Read Inp Data Files
read.pdi.data: Read Pdi Data Files
read.phylip.data: Read Phylip Infile Data Files
read.phylog.matrix: Read a Phylogenetic Covariance Matrix
read.sim.data: Read Sim Files From PDSIMUL
SimulExample: A simulated data set
summary.phylog.cancor: Summarize a phylog.cancor object
summary.phylog.lm: Summarize a phylog.lm object
summary.phylog.prcomp: Summarize a phylog.prcomp object

Functions

Files

COPYING
inst
inst/Examples
inst/Examples/iclag.pdi
inst/Examples/49hmt.sim
inst/Examples/49hmt.inp
inst/Examples/49ms.sim
inst/Examples/ifsmi.pdi
inst/Examples/icfxx.sim
inst/Examples/ihshw.sim
inst/Examples/ihshw.fic
inst/Examples/49ms.fic
inst/Examples/49lbr.pdi
inst/Examples/ihshw.pdi
inst/Examples/49hmt.pdi
inst/Examples/ifsmi.sim
inst/Examples/49hmt.fic
inst/Examples/49lbr.inp
inst/Examples/Rplots.ps
inst/Examples/iclag.sim
inst/Examples/49ms.dsc
inst/Examples/LacertidData.PhylipIntree
inst/Examples/49ms.pdi
inst/Examples/Examples-code.R
inst/Examples/LacertidData.PhylipInfile
inst/Examples/Index
inst/Examples/iclag.fic
inst/Examples/ifsmi.fic
inst/Examples/icfxx.pdi
inst/Examples/ifsmi.dsc
inst/Examples/Examples.pdf
inst/Examples/49lbr.sim
inst/Examples/icfxx.fic
NAMESPACE
data
data/GarlandJanis.Original.txt.gz
data/Lacertid.varcov.txt.gz
data/GarlandJanis.varcov.txt.gz
data/SimulExample.txt.gz
data/Lacertid.IC.txt.gz
data/GarlandJanis.IC.txt.gz
data/Lacertid.Original.txt.gz
R
R/PHYLOGR.R
MD5
DESCRIPTION
man
man/plot.phylog.lm.Rd
man/read.pdi.data.Rd
man/summary.phylog.lm.Rd
man/cor.origin.Rd
man/read.sim.data.Rd
man/Lacertid.varcov.Rd
man/matrix.D.Rd
man/Lacertid.IC.Rd
man/cancor.phylog.Rd
man/Helper.functions.Rd
man/summary.phylog.prcomp.Rd
man/SimulExample.Rd
man/phylog.gls.fit.Rd
man/GarlandJanis.IC.Rd
man/GarlandJanis.varcov.Rd
man/GarlandJanis.Original.Rd
man/prcomp.phylog.Rd
man/read.phylog.matrix.Rd
man/lm.phylog.Rd
man/plot.phylog.prcomp.Rd
man/print.summary.phylog.Rd
man/plot.phylog.cancor.Rd
man/read.phylip.data.Rd
man/Lacertid.Original.Rd
man/summary.phylog.cancor.Rd
man/read.inp.data.Rd
INDEX
CHANGES
PHYLOGR documentation built on May 20, 2017, 2:39 a.m.

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