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mvabund (version 3.10.4)

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

1,713

Version

3.10.4

License

LGPL (>= 2.1)

Maintainer

David Warton

Last Published

May 12th, 2015

Functions in mvabund (3.10.4)

Draw a Mvabund Object split into groups.

boxplot.mvabund

Boxplots for multivariate abundance Data

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

deviance.manylm

ANOVA for Linear Model Fits for Multivariate Abundance Data

residuals.manyglm

Residuals for MANYGLM, MANYANY, GLM1PATH Fits

Model Predictions for Multivariate Linear Models

extend.x.formula

Extend a Formula to all of it's Terms

Plot Multivariate Abundance Data and Formulae

Estimation of the ridge parameter

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

Analysis of Deviance for Multivariate Generalized Linear Model Fits for Abundance Data

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

mvabund-internal

Internal mvabund Objects

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

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

Model Formulae for Multivariate Abundance Data

Plot Diagnostics for a manylm or a manyglm Object

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

Tasmania Dataset

Multivariate Abundance Data Objects

Fitting Linear Models for Multivariate Abundance Data

Tikus Island Dataset

Remove the mvabund Class Attribute

Fitting Generalized Linear Models for Multivariate Abundance Data

summary.manyglm

Summarizing Multivariate Generalized Linear Model Fits for Abundance Data

Calculate the Log Likelihood

Create a List of Univariate Formulas

Ant data, with species traits

workhose functions for fitting multivariate linear models

mvabund-package

Statistical methods for analysing multivariate abundance data

predict.traitglm

Predictions from fourth corner model fits

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

Fitting Many Univariate Models to Multivariate Abundance Data

Construct Mean-Variance plots for Multivariate Abundance Data

predict.manyglm

Predict Method for MANYGLM Fits

Summarizing Linear Model Fits for Multivariate Abundance Data

Plot Diagnostics for a manyany or glm1path Object

Calculate a shift for plotting overlapping points