R语言vegan包使用教程

R语言中的外在软件包“Vegan”是专门用于群落生态学分析的工具。Vegan能够提供所有基本的排序方法,同时具有生成精美排序图的功能,版本更新很快。我们认为Vegan包完全可以取代CANOCO,成为今后排序分析的首选统计工具。

MultivariateAnalysisofEcologicalCommunitiesinR:vegantutorial

JariOksanenFebruary8,2013

Abstract

ThistutorialdemostratestheuseofordinationmethodsinRpack-agevegan.ThetutorialassumesfamiliaritybothwithRandwithcommunityordination.Packagevegansupportsallbasicor-dinationmethods,includingnon-metricmultidimensionalscaling.Theconstrainedordinationmethodsincludeconstrainedanalysisofproximities,redundancyanalysisandconstrainedcorrespondenceanalysis.Packageveganalsohassupportfunctionsfor ttingen-vironmentalvariablesandforordinationgraphics.

Contents

1Introduction

2Ordination:basicmethod

2.1Non-metricMultidimensionalscaling............2.2Communitydissimilarities..................2.3Comparingordinations:Procrustesrotation........2.4Eigenvectormethods.....................2.5Detrendedcorrespondenceanalysis.............2.6Ordinationgraphics.............

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3Environmentalinterpretation

3.1Vector tting.........................3.2Surface tting.........................3.3Factors.............................4Constrainedordination

4.1Modelspeci cation......................4.2Permutationtests.......................4.3Modelbuilding........................4.4Linearcombinationsandweightedaverages........4.5Biplotarrowsandenvironmentalcalibration........4.6Conditionedorpartialmodels........

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