R Graphical Manual

Last data update: 2014.03.03

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R Release (3.2.3)
CranContrib
BioConductor
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Results 1 - 8 of 8 found.
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PVR-class (Package: PVR) : Class code{"PVR"

A S4 class that contains eigenvalues and eigenvectors from decomposition of a phylogenetic distance matrix and PVR r squared and residuals.

● Data Source: CranContrib
● Keywords: classes
● Alias: PVR-class, show,PVR-method
● 0 images

VarPartplot (Package: PVR) :

Plot a, b, c and d components of traits variation partition between phylogeny and environment (as defined by Desdevises et al., 2003).

● Data Source: CranContrib
● Keywords: PSR, Phylogenetic signal
● Alias: VarPartplot
● 1 images

PVR (Package: PVR) :

The phylogenetic eigenvector regression (PVR) starts by performing an eigendecomposition of a pairwise double-centered phylogenetic distance matrix between species. The eigenvectors (representing the traits under analysis) estimated values express phylogenetic trends in data and residuals express independent evolution of each species.

● Data Source: CranContrib
● Keywords: Phylogenetic models, Phylogenetic signal
● Alias: PVR
● 0 images

PVRdecomp (Package: PVR) :

The PVRdecomp function decompose phylogenetic distance matrices (computed based on phylogenies) into a set of orthongonal eigenvectors

● Data Source: CranContrib
● Keywords: phylogenetic signal, phylogeny
● Alias: PVRdecomp
● 0 images

PSR-class (Package: PVR) : Class code{"PSR"

A S4 class that extends S4 PVR class in order to accommodate PSR analysis results.

● Data Source: CranContrib
● Keywords: classes
● Alias: PSR-class, plot,PSR-method, show,PSR-method
● 0 images

PSR (Package: PVR) :

Phylogenetic signal-representation (PSR) curve, built upon phylogenetic eigenvector regression (PVR). Sequential PVR models are fitted after successively increasing the number of eigenvectors and plotting their R2 against the accumulated eigenvalues. The PSR area, expressing deviations from Brownian motion, is strongly correlated with Blomberg's K-statistics, so nonlinear PSR curves reveal if traits are evolving at a slower or higher rate than expected. The PSR area is also correlated with phylogenetic half-life under an OU process, so both methods describe the relationship between interspecific variation and time since divergence among species shape.

● Data Source: CranContrib
● Keywords: phylogenetic signal, phylogeny
● Alias: PSR
● 1 images

PSRplot (Package: PVR) :

Plot PSR curve along with null and neutral expectations curves.

● Data Source: CranContrib
● Keywords: PSR area, PVR
● Alias: PSRplot
● 1 images

PVR-package (Package: PVR) :

Computes PVR and PSR curve along with some plot utilitties.

● Data Source: CranContrib
● Keywords: package
● Alias: PVR-package
● 1 images