mvabund v4.0.1

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Statistical Methods for Analysing Multivariate Abundance Data

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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mvabund Build Status License CRAN Downloads

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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)

Functions in mvabund

Name Description
coefplot.manyglm Plots the coefficients of the covariates of a manyglm object with confidence intervals.
manylm Fitting Linear Models for Multivariate Abundance Data
manylm.fit workhose functions for fitting multivariate linear models
mvformula Model Formulae for Multivariate Abundance Data
plot.manyany Plot Diagnostics for a manyany or glm1path Object
Tasmania Tasmania Dataset
anova.manyany Analysis of Deviance for Many Univariate Models Fitted to Multivariate Abundance Data
residuals.manyglm Residuals for MANYGLM, MANYANY, GLM1PATH Fits
ridgeParamEst Estimation of the ridge parameter
formulaUnimva Create a List of Univariate Formulas
glm1path Fits a path of Generalised Linear Models with LASSO (or L1) penalties, and finds the model that minimises BIC.
glm1 Fits a Generalised Linear Models with a LASSO (or L1) penalty, given a value of the penalty parameter.
mvabund Multivariate Abundance Data Objects
mvabund-package Statistical methods for analysing multivariate abundance data
logLik.manylm Calculate the Log Likelihood
spider Spider data
summary.manyglm Summarizing Multivariate Generalized Linear Model Fits for Abundance Data
plotMvaFactor Draw a Mvabund Object split into groups.
predict.manyglm Predict Method for MANYGLM Fits
anova.manyglm Analysis of Deviance for Multivariate Generalized Linear Model Fits for Abundance Data
anova.manylm ANOVA for Linear Model Fits for Multivariate Abundance Data
plot.manylm Plot Diagnostics for a manylm or a manyglm Object
anova.traitglm Testing for a environment-by-trait (fourth corner) interaction by analysis of deviance
plot.mvabund Plot Multivariate Abundance Data and Formulae
predict.manylm Model Predictions for Multivariate Linear Models
antTraits Ant data, with species traits
predict.traitglm Predictions from fourth corner model fits
manyany Fitting Many Univariate Models to Multivariate Abundance Data
manyglm Fitting Generalized Linear Models for Multivariate Abundance Data
shiftpoints Calculate a shift for plotting overlapping points
solberg Solberg Data
traitglm Fits a fourth corner model for abundance as a function of environmental variables and species traits.
unabund Remove the mvabund Class Attribute
best.r.sq Use R^2 to find the variables that best explain a multivariate response.
boxplot.mvabund Boxplots for multivariate abundance Data
deviance.manylm Model Deviance
extend.x.formula Extend a Formula to all of it's Terms
meanvar.plot Construct Mean-Variance plots for Multivariate Abundance Data
mvabund-internal Internal mvabund Objects
summary.manylm Summarizing Linear Model Fits for Multivariate Abundance Data
tikus Tikus Island Dataset
cv.glm1path Fits a path of Generalised Linear Models with LASSO (or L1) penalties, and finds the best model by corss-validation.
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Details

Date 2019-01-07
Encoding UTF-8
LinkingTo Rcpp, RcppGSL
License LGPL (>= 2.1)
NeedsCompilation yes
Packaged 2019-01-07 02:40:20 UTC; z3103495
RoxygenNote 6.0.1
Repository CRAN
Date/Publication 2019-01-07 17:00:11 UTC

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