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mvabund

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Statistical Methods for Analysing Multivariate Abundance Data

Authors

Yi Wang, Ulrike Naumann, Stephen Wright, Dirk Eddelbuettel and David Warton

License

LGPL (>= 2.1)

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Version

Install

install.packages('mvabund')

Monthly Downloads

1,379

Version

3.11.9

License

LGPL (>= 2.1)

Maintainer

David Warton

Last Published

April 29th, 2016

Functions in mvabund (3.11.9)

glm1path

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

Model Deviance
anova.traitglm

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

Tasmania Dataset
manyany

Fitting Many Univariate Models to Multivariate Abundance Data
boxplot.mvabund

Boxplots for multivariate abundance Data
logLik.manylm

Calculate the Log Likelihood
mvabund-package

Statistical methods for analysing multivariate abundance data
glm1

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

Plot Diagnostics for a manyany or glm1path Object
meanvar.plot

Construct Mean-Variance plots for Multivariate Abundance Data
solberg

Solberg Data
spider

Spider data
mvformula

Model Formulae for Multivariate Abundance Data
residuals.manyglm

Residuals for MANYGLM, MANYANY, GLM1PATH Fits
manylm.fit

workhose functions for fitting multivariate linear models
anova.manyany

Analysis of Deviance for Many Univariate Models Fitted to Multivariate Abundance Data
unabund

Remove the mvabund Class Attribute
summary.manyglm

Summarizing Multivariate Generalized Linear Model Fits for Abundance Data
plotMvaFactor

Draw a Mvabund Object split into groups.
summary.manylm

Summarizing Linear Model Fits for Multivariate Abundance Data
mvabund

Multivariate Abundance Data Objects
mvabund-internal

Internal mvabund Objects
plot.manylm

Plot Diagnostics for a manylm or a manyglm Object
anova.manylm

ANOVA for Linear Model Fits for Multivariate Abundance Data
shiftpoints

Calculate a shift for plotting overlapping points
anova.manyglm

Analysis of Deviance for Multivariate Generalized Linear Model Fits for Abundance Data
cv.glm1path

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

Plot Multivariate Abundance Data and Formulae
predict.manylm

Model Predictions for Multivariate Linear Models
traitglm

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

Fitting Generalized Linear Models for Multivariate Abundance Data
extend.x.formula

Extend a Formula to all of it's Terms
formulaUnimva

Create a List of Univariate Formulas
tikus

Tikus Island Dataset
ridgeParamEst

Estimation of the ridge parameter
predict.manyglm

Predict Method for MANYGLM Fits
predict.traitglm

Predictions from fourth corner model fits
best.r.sq

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

Fitting Linear Models for Multivariate Abundance Data
antTraits

Ant data, with species traits