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mvabund (version 3.12.3)

Statistical Methods for Analysing Multivariate Abundance Data

Description

A set of tools for displaying, modeling and analysing multivariate abundance data in community ecology. See 'mvabund-package.Rd' for details of overall package organization. The package is implemented with the Gnu Scientific Library (http://www.gnu.org/software/gsl/) and Rcpp (http://dirk.eddelbuettel.com/code/rcpp.html) R / C++ classes.

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Version

Install

install.packages('mvabund')

Monthly Downloads

1,379

Version

3.12.3

License

LGPL (>= 2.1)

Maintainer

David Warton

Last Published

April 27th, 2017

Functions in mvabund (3.12.3)

Tasmania

Tasmania Dataset
anova.manyany

Analysis of Deviance for Many Univariate Models Fitted to Multivariate Abundance Data
cv.glm1path

Fits a path of Generalised Linear Models with LASSO (or L1) penalties, and finds the best model by corss-validation.
deviance.manylm

Model Deviance
best.r.sq

Use R^2 to find the variables that best explain a multivariate response.
anova.manylm

ANOVA for Linear Model Fits for Multivariate Abundance Data
anova.traitglm

Testing for a environment-by-trait (fourth corner) interaction by analysis of deviance
antTraits

Ant data, with species traits
boxplot.mvabund

Boxplots for multivariate abundance Data
glm1

Fits a Generalised Linear Models with a LASSO (or L1) penalty, given a value of the penalty parameter.
glm1path

Fits a path of Generalised Linear Models with LASSO (or L1) penalties, and finds the model that minimises BIC.
anova.manyglm

Analysis of Deviance for Multivariate Generalized Linear Model Fits for Abundance Data
manylm.fit

workhose functions for fitting multivariate linear models
meanvar.plot

Construct Mean-Variance plots for Multivariate Abundance Data
plot.manyany

Plot Diagnostics for a manyany or glm1path Object
plot.manylm

Plot Diagnostics for a manylm or a manyglm Object
plot.mvabund

Plot Multivariate Abundance Data and Formulae
plotMvaFactor

Draw a Mvabund Object split into groups.
logLik.manylm

Calculate the Log Likelihood
manyany

Fitting Many Univariate Models to Multivariate Abundance Data
mvabund

Multivariate Abundance Data Objects
mvformula

Model Formulae for Multivariate Abundance Data
extend.x.formula

Extend a Formula to all of it's Terms
formulaUnimva

Create a List of Univariate Formulas
mvabund-internal

Internal mvabund Objects
mvabund-package

Statistical methods for analysing multivariate abundance data
solberg

Solberg Data
spider

Spider data
predict.traitglm

Predictions from fourth corner model fits
residuals.manyglm

Residuals for MANYGLM, MANYANY, GLM1PATH Fits
manyglm

Fitting Generalized Linear Models for Multivariate Abundance Data
manylm

Fitting Linear Models for Multivariate Abundance Data
predict.manyglm

Predict Method for MANYGLM Fits
tikus

Tikus Island Dataset
traitglm

Fits a fourth corner model for abundance as a function of environmental variables and species traits.
unabund

Remove the mvabund Class Attribute
summary.manyglm

Summarizing Multivariate Generalized Linear Model Fits for Abundance Data
summary.manylm

Summarizing Linear Model Fits for Multivariate Abundance Data
predict.manylm

Model Predictions for Multivariate Linear Models
ridgeParamEst

Estimation of the ridge parameter
shiftpoints

Calculate a shift for plotting overlapping points