Functions for Phylogenetically Based Statistical Analyses
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Documentation for package ‘PHYLOGR’ version 1.0.11
Help 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 limb length |
| GarlandJanis.varcov | Phylogenetic variance-covariance matrix for Garland & Janis (1993). |
| Lacertid.IC | Independet contrasts for Bauwens and Diaz-Uriarte (1997) lacertid data set |
| Lacertid.Original | Bauwens and Diaz-Uriarte (1997) lacertid data |
| Lacertid.varcov | Variance-covariance matrix for lacertids from Bauwens and Diaz-uriarte (1997) |
| lm.phylog | Linear Models from Simulated Data Sets |
| matrix.D | Produce the Matrix D of Garland and Ives (2000) for GLS |
| num.sim.tips | Helper functions |
| number.of.simulations | Helper functions |
| number.of.tips.inp | Helper functions |
| number.of.tips.pdi | Helper functions |
| number.of.tips.sim | Helper functions |
| 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.cancor | Printing summaries of PHYLOGR statistical functions |
| print.summary.phylog.lm | Printing summaries of PHYLOGR statistical functions |
| print.summary.phylog.prcomp | 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 |
| scan.inp.file | Helper functions |
| scan.pdi.file | Helper functions |
| scan.simulation.file | Helper functions |
| 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 |
| tips.names.inp | Helper functions |
| tips.names.pdi | Helper functions |