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evolqg (version 0.1-7)

Tools for Evolutionary Quantitative Genetics

Description

Provides functions for covariance matrix comparisons, estimation of repeatabilities in measurements and matrices, and general evolutionary quantitative genetics tools.

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Version

Install

install.packages('evolqg')

Monthly Downloads

658

Version

0.1-7

License

MIT + file LICENSE

Maintainer

Diogo Melo

Last Published

August 19th, 2015

Functions in evolqg (0.1-7)

MonteCarloRep

Parametric repeatabilities with covariance or correlation matrices
dentus.tree

Tree for dentus example species
PCScoreCorrelation

PC Score Correlation Test
MatrixDistance

Matrix distance
CalculateMatrix

Calculate Covariance Matrix from a linear model fitted with lm()
MeanMatrixStatistics

Calculate mean values for various matrix statistics
KrzCor

Compare matrices via Krzanowski Correlation
OverlapDist

Distribution overlap distance
RandCorr

Random correlation matrix
LModularity

L Modularity
SingleComparisonMap

Generic Single Comparison Map functions for creating parallel list methods Internal functions for making eficient comparisons.
PlotTreeDriftTest

Plot results from TreeDriftTest
CalcR2CvCorrected

Corrected integration value
CalcRepeatability

Parametric per trait Repeatabilities
BootstrapRep

Bootstrap analysis via resampling
BootstrapR2

R2 confidence intervals by bootstrap resampling
PhyloCompare

Compares sister groups
KrzProjection

Compare matrices via Modified Krzanowski Correlation
DriftTest

Test drift hypothesis
PCAsimilarity

Compare matrices using PCA similarity factor
Rarefaction

Rarefaction analysis via ressampling
dentus

Example multivariate data set
PrintMatrix

Print Matrix to file
PhyloW

Calculates ancestral states of some statistic
TestModularity

Test modularity hypothesis
evolqg

EvolQG
Normalize

Normalize and Norm
MatrixCompare

Matrix Compare
RiemannDist

Matrix Riemann distance
AlphaRep

Alpha Repetability
RandomMatrix

Random matrices for tests
AncestralStates

Fast estimation of ML ancestral stated for multivariate continous traits
CalcR2

Mean Squared Correlations
TreeDriftTest

Drift test along phylogeny
MantelCor

Compare matrices via Mantel Correlation
RemoveSize

Remove Size Variation
ComparisonMap

Generic Comparison Map functions for creating parallel list methods Internal functions for making eficient comparisons.
MonteCarloStat

Parametric population samples with covariance or correlation matrices
RandomSkewers

Compare matrices via RandomSkewers
MonteCarloR2

R2 confidence intervals by parametric sampling
SRD

Compare matrices via Selection Response Decomposition
CalcICV

Calculates the ICV of a covariance matrix.
ExtendMatrix

Control Inverse matrix noise with Extension
MultiMahalanobis

Calculate Mahalonabis distance for many vectors