mvabund: 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.

AuthorYi Wang, Ulrike Naumann, Stephen Wright, Dirk Eddelbuettel and David Warton
Date of publication2016-04-29 12:11:50
MaintainerDavid Warton <David.Warton@unsw.edu.au>
LicenseLGPL (>= 2.1)
Version3.11.9

View on CRAN

Man pages

anova.manyany: Analysis of Deviance for Many Univariate Models Fitted to...

anova.manyglm: Analysis of Deviance for Multivariate Generalized Linear...

anova.manylm: ANOVA for Linear Model Fits for Multivariate Abundance Data

anova.traitglm: Testing for a environment-by-trait (fourth corner)...

antTraits: Ant data, with species traits

best.r.sq: Use R^2 to find the variables that best explain a...

boxplot.mvabund: Boxplots for multivariate abundance Data

cv.glm1path: Fits a path of Generalised Linear Models with LASSO (or L1)...

deviance.manylm: Model Deviance

extend.x.formula: Extend a Formula to all of it's Terms

formulaUnimva: Create a List of Univariate Formulas

glm1: Fits a Generalised Linear Models with a LASSO (or L1)...

glm1path: Fits a path of Generalised Linear Models with LASSO (or L1)...

logLik.manylm: Calculate the Log Likelihood

manyany: Fitting Many Univariate Models to Multivariate Abundance Data

manyglm: Fitting Generalized Linear Models for Multivariate Abundance...

manylm: Fitting Linear Models for Multivariate Abundance Data

manylm.fit: workhose functions for fitting multivariate linear models

meanvar.plot: Construct Mean-Variance plots for Multivariate Abundance Data

mvabund: Multivariate Abundance Data Objects

mvabund-internal: Internal mvabund Objects

mvabund-package: Statistical methods for analysing multivariate abundance data

mvformula: Model Formulae 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.

predict.manyglm: Predict Method for MANYGLM Fits

predict.manylm: Model Predictions for Multivariate Linear Models

predict.traitglm: Predictions from fourth corner model fits

residuals.manyglm: Residuals for MANYGLM, MANYANY, GLM1PATH Fits

ridgeParamEst: Estimation of the ridge parameter

shiftpoints: Calculate a shift for plotting overlapping points

solberg: Solberg Data

spider: Spider data

summary.manyglm: Summarizing Multivariate Generalized Linear Model Fits for...

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

Tasmania: Tasmania Dataset

tikus: Tikus Island Dataset

traitglm: Fits a fourth corner model for abundance as a function of...

unabund: Remove the mvabund Class Attribute

Files in this package

mvabund
mvabund/src
mvabund/src/Makevars
mvabund/src/Rinterface.cpp
mvabund/src/rnd.cpp
mvabund/src/anova.cpp
mvabund/src/simutility.cpp
mvabund/src/summary.cpp
mvabund/src/calctest.cpp
mvabund/src/io.cpp
mvabund/src/resampTest.h
mvabund/src/glm.cpp
mvabund/src/mvabund_types.h
mvabund/src/Makevars.win
mvabund/src/RcppExports.cpp
mvabund/src/rmv.h
mvabund/src/glmtest.cpp
mvabund/NAMESPACE
mvabund/data
mvabund/data/antTraits.RData
mvabund/data/solberg.RData
mvabund/data/spider.RData
mvabund/data/tikus.RData
mvabund/data/Tasmania.RData
mvabund/R
mvabund/R/mvabund.object.R mvabund/R/cv.glm1path.R mvabund/R/make.vslink.R mvabund/R/manylm.R mvabund/R/quasiloglik.R mvabund/R/residuals.glm1path.R mvabund/R/glm1.R mvabund/R/effic.make.link.R mvabund/R/anova.manyglm.R mvabund/R/transAxis.SW.R mvabund/R/weighted.residuals.manylm.R mvabund/R/plot.mvabund.R mvabund/R/rstandard.manylm.R mvabund/R/absspp.R mvabund/R/default.boxplot.mvabund.R mvabund/R/default.print.summary.manyglm.R mvabund/R/print.mvformula.R mvabund/R/default.print.anova.manyglm.R mvabund/R/manyany.R mvabund/R/default.plot.mvabund.R mvabund/R/variable.names.manyglm.R mvabund/R/print.anova.manylm.R mvabund/R/print.summary.manylm.R mvabund/R/shiftpoints.R mvabund/R/extract.mvabund.R mvabund/R/residuals.manyglm.R mvabund/R/AllClass.R mvabund/R/rstudent.manylm.R mvabund/R/default.plotMvaFactor.R mvabund/R/plot.mvformula.R mvabund/R/cooks.distance.manylm.R mvabund/R/predict.manylm.R mvabund/R/dffits.manylm.R mvabund/R/print.manyglm.R mvabund/R/formulaUnimva.R mvabund/R/summary.manylm.R mvabund/R/anova.manylm.R mvabund/R/as.data.frame.mvabund.R mvabund/R/deviance.manylm.R mvabund/R/is.wholenumber.R mvabund/R/boxplot.mvformula.R mvabund/R/mvformula.R mvabund/R/quasipoisson.R mvabund/R/default.plot.manyglm.R mvabund/R/binstruc.R mvabund/R/default.plot.mvformula.R mvabund/R/dfbeta.manylm.R mvabund/R/default.plot.manylm.R mvabund/R/logLik.manylm.R mvabund/R/hatvalues.manylm.R mvabund/R/covratio.manylm.R mvabund/R/manylm.influence.R mvabund/R/RcppExports.R mvabund/R/betaest.R mvabund/R/plot.manylm.R mvabund/R/predict.traitglm.R mvabund/R/manylm.influence.measures.R mvabund/R/boxplot.mvabund.R mvabund/R/manyglm.R mvabund/R/best.r.sq.R mvabund/R/as.matrix.mvabund.R mvabund/R/plot.manyglm.R mvabund/R/meanvar.plot.R mvabund/R/plotFormulafeature.R mvabund/R/logLik.manyglm.R mvabund/R/nobs.manyglm.R mvabund/R/RcppVersion.R mvabund/R/predict.manyglm.R mvabund/R/weights.manyglm.R mvabund/R/print.anova.manyglm.R mvabund/R/RidgeParamEst.R mvabund/R/cbind.mvabund.R mvabund/R/quasibinomialMany.R mvabund/R/anova.traitglm.R mvabund/R/unabund.R mvabund/R/case.names.manylm.R mvabund/R/summary.manyglm.R mvabund/R/influence.manylm.R mvabund/R/print.summary.manyglm.R mvabund/R/print.infl.mvabund.R mvabund/R/plotMvaFactor.R mvabund/R/glm1path.R mvabund/R/anova.manyany.R mvabund/R/rbind.mvabund.R mvabund/R/rcalc.R mvabund/R/traitglm.R mvabund/R/dfbetas.manylm.R mvabund/R/extend.x.formula.R mvabund/R/default.meanvar.plot.R mvabund/R/qordinal.R mvabund/R/extractAIC.manyglm.R mvabund/R/default.boxplot.mvformula.R mvabund/R/manylm.multiwfit.R
mvabund/README.md
mvabund/MD5
mvabund/DESCRIPTION
mvabund/man
mvabund/man/anova.traitglm.Rd mvabund/man/plotMvaFactor.Rd mvabund/man/mvformula.Rd mvabund/man/predict.traitglm.Rd mvabund/man/extend.x.formula.Rd mvabund/man/manyglm.Rd mvabund/man/antTraits.Rd mvabund/man/manyany.Rd mvabund/man/summary.manylm.Rd mvabund/man/summary.manyglm.Rd mvabund/man/plot.manyany.Rd mvabund/man/mvabund-internal.Rd mvabund/man/predict.manyglm.Rd mvabund/man/plot.mvabund.Rd mvabund/man/tikus.Rd mvabund/man/cv.glm1path.Rd mvabund/man/manylm.Rd mvabund/man/mvabund-package.Rd mvabund/man/spider.Rd mvabund/man/residuals.manyglm.Rd mvabund/man/predict.manylm.Rd mvabund/man/glm1path.Rd mvabund/man/mvabund.Rd mvabund/man/shiftpoints.Rd mvabund/man/boxplot.mvabund.Rd mvabund/man/meanvar.plot.Rd mvabund/man/formulaUnimva.Rd mvabund/man/ridgeParamEst.Rd mvabund/man/plot.manylm.Rd mvabund/man/traitglm.Rd mvabund/man/manylm.fit.Rd mvabund/man/unabund.Rd mvabund/man/deviance.manylm.Rd mvabund/man/logLik.manylm.Rd mvabund/man/anova.manyglm.Rd mvabund/man/best.r.sq.Rd mvabund/man/solberg.Rd mvabund/man/anova.manyany.Rd mvabund/man/glm1.Rd mvabund/man/Tasmania.Rd mvabund/man/anova.manylm.Rd
mvabund/cleanup

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