rdacca.hp包:层次结构与变分分区分析的应用说明书-USB迷|专注于互联网分享

rdacca.hp包:层次结构与变分分区分析的应用说明书

2024年5月24日发(作者：夷立辉)

Package‘’

May23,2023

TypePackage

TitleHierarchicalandVariationPartitioningforCanonicalAnalysis

Version1.1-0

Date2023-5-23

DependsR(>=3.4.0),vegan,ggplot2

AuthorJiangshanLai,YaoLiu,PedroPeres-Neto,KimNimon

MaintainerJiangshanLai<************.cn>

DescriptionThisfunctionconductsvariationpartitioningandhierarchicalpartitioningtocalcu-

latetheunique,shared(referredasto``common'')andindividualcontributionsofeachpredic-

tor(ormatrix)towardsexplainedvariation(R-squareandadjustedR-square)oncanonicalanaly-

sis(RDA,CCAanddb-RDA),applyingthealgorithmofLaiJ.,ZouY.,ZhangJ.,Peres-

NetoP.(2022)Generalizinghierarchicalandvariationpartitioninginmultipleregres-

sinEcologyandEvolu-

tion,13:782-788.

LicenseGPL

URL/laijiangshan/

EncodingUTF-8

RoxygenNote7.1.1

NeedsCompilationno

RepositoryCRAN

Date/Publication2023-05-2309:10:02UTC

Rtopicsdocumented:

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hp........................................

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Index

utationTestofHierarchicalPartitioningforCanonicalAnalysis

Description

PermutationTestofHierarchicalPartitioningforCanonicalAnalysis

Usage

(

dv,

iv,

method=c("RDA","dbRDA","CCA"),

type=c("adjR2","R2"),

scale=FALSE,

add=FALSE,

=FALSE,

=1000,

permutations=1000

)

Arguments

Responsevariable,od="dbRDA",dv

shouldbea"dist"matrix.

Predictors(explanatoryvariable),

itisadataframe,therelativeimportanceofeachcolumnofthedataframewill

beevaluated;ifitisalist,therelativeimportanceofeachelement(matrix)will

beevaluated.

Typeofcanonicalanalysisusedforvariationpartitioning,shouldbeacharacter

string,either"RDA","dbRDA"or"CCA",thedefaultis"RDA".Iftheresponse

variable(dv)isanumericalvectorandmethod="RDA",thehierarchicaland

variationpartitioningfortheclassicalmultipleregressionisimplemented.

Thetypeoftotalexplainedvariation,either"R2"or"adjR2",inwhich"R2"is

unadjustedR-squareand"adjR2"isadjustedR-square,thedefaultis"adjR2".

TheadjustedR-squareiscalculatedusingEzekiel’sformula(Ezekiel1930)for

RDAanddbRDA,whilepermutationprocedureisusedforCCA(Peres-Netoet

al.2006).

Logical;Ifthecolumnsofdvshouldbestandardizedtounitvariancewhen

method="RDA"isapplied.

Logical;Ifaconstantshouldbeaddedtothenon-diagonalvaluestoeuclidify

dissimilarities(seedbrdafunctioninveganfordetails).Choice"lingoes"(or

TRUE)usestherecommendedmethodofLegendre&Anderson(1999:"method

1")and"cailliez"usestheir"method2".Theargumenthasaneffectonlywhen

method="dbRDA".

method

type

scale

add