Package: PMCMRplus 1.9.12

Thorsten Pohlert

PMCMRplus: Calculate Pairwise Multiple Comparisons of Mean Rank Sums Extended

For one-way layout experiments the one-way ANOVA can be performed as an omnibus test. All-pairs multiple comparisons tests (Tukey-Kramer test, Scheffe test, LSD-test) and many-to-one tests (Dunnett test) for normally distributed residuals and equal within variance are available. Furthermore, all-pairs tests (Games-Howell test, Tamhane's T2 test, Dunnett T3 test, Ury-Wiggins-Hochberg test) and many-to-one (Tamhane-Dunnett Test) for normally distributed residuals and heterogeneous variances are provided. Van der Waerden's normal scores test for omnibus, all-pairs and many-to-one tests is provided for non-normally distributed residuals and homogeneous variances. The Kruskal-Wallis, BWS and Anderson-Darling omnibus test and all-pairs tests (Nemenyi test, Dunn test, Conover test, Dwass-Steele-Critchlow- Fligner test) as well as many-to-one (Nemenyi test, Dunn test, U-test) are given for the analysis of variance by ranks. Non-parametric trend tests (Jonckheere test, Cuzick test, Johnson-Mehrotra test, Spearman test) are included. In addition, a Friedman-test for one-way ANOVA with repeated measures on ranks (CRBD) and Skillings-Mack test for unbalanced CRBD is provided with consequent all-pairs tests (Nemenyi test, Siegel test, Miller test, Conover test, Exact test) and many-to-one tests (Nemenyi test, Demsar test, Exact test). A trend can be tested with Pages's test. Durbin's test for a two-way balanced incomplete block design (BIBD) is given in this package as well as Gore's test for CRBD with multiple observations per cell is given. Outlier tests, Mandel's k- and h statistic as well as functions for Type I error and Power analysis as well as generic summary, print and plot methods are provided.

Authors:Thorsten Pohlert [aut, cre]

PMCMRplus_1.9.12.tar.gz
PMCMRplus_1.9.12.tar.gz(r-4.5-noble)PMCMRplus_1.9.12.tar.gz(r-4.4-noble)
PMCMRplus_1.9.12.tgz(r-4.4-emscripten)PMCMRplus_1.9.12.tgz(r-4.3-emscripten)
PMCMRplus.pdf |PMCMRplus.html
PMCMRplus/json (API)
NEWS

# Install 'PMCMRplus' in R:
install.packages('PMCMRplus', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Datasets:
  • Pentosan - Pentosan Dataset
  • algae - Algae Growth Inhibition Data Set
  • qPCR - QPCR Curve Analysis Methods
  • reviewers - Reviewers
  • trout - Data from a Dose-Response Experiment with Trouts

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

9.50 score 6 stars 12 packages 432 scripts 22k downloads 41 mentions 103 exports 13 dependencies

Last updated 2 months agofrom:da70f47048. Checks:OK: 2. Indexed: yes.

TargetResultDate
Doc / VignettesOKNov 08 2024
R-4.5-linux-x86_64OKNov 08 2024

Exports:adAllPairsTestadKSampleTestadManyOneTestbarPlotbwsAllPairsTestbwsKSampleTestbwsManyOneTestbwsTrendTestchaAllPairsNashimotoTestchackoTestchenJanTestchenTestcochranTestcuzickTestdoubleGrubbsTestdscfAllPairsTestduncanTestdunnettT3TestdunnettTestdurbinAllPairsTestdurbinTestflignerWolfeTestfrdAllPairsConoverTestfrdAllPairsExactTestfrdAllPairsMillerTestfrdAllPairsNemenyiTestfrdAllPairsSiegelTestfrdHouseTestfrdManyOneDemsarTestfrdManyOneExactTestfrdManyOneNemenyiTestfriedmanTestgamesHowellTestgesdTestgoreTestgrubbsTestGSTTesthartleyTesthayterStoneTesthsAllPairsTestjohnsonTestjonckheereTestkruskalTestkwAllPairsConoverTestkwAllPairsDunnTestkwAllPairsNemenyiTestkwManyOneConoverTestkwManyOneDunnTestkwManyOneNdwTestleTestlsdTestmackWolfeTestmandelhTestmandelkTestmanyOneUTestmedianAllPairsTestmedianTestmrrTestMTestnormalScoresAllPairsTestnormalScoresManyOneTestnormalScoresTestNPMTestosrtTestpageTestpcochranpdgrubbspDunnettpgrubbspmandelhpmandelkpower.dunnett.testpower.tukey.testpower.williams.testpowerMCTestspowerOneWayTestsqcochranqDunnettqgrubbsqmandelhqmandelkquadeAllPairsTestscheffeTestshanTestshirleyWilliamsTestsiegelTukeyTestskillingsMackTestsnkTestspearmanTeststeelsKSampleTeststeelTeststepDownTrendTestsummaryGrouptamhaneDunnettTesttamhaneT2TesttoTidytukeyTesturyWigginsHochbergTestvanWaerdenAllPairsTestvanWaerdenManyOneTestvanWaerdenTestwelchManyOneTTestwilliamsTest

Dependencies:BWStestcachemfastmapgmpkSamplesMASSmemoisemultcompViewmvtnormRcpprlangRmpfrSuppDists

PMCMR Quick Reference Guide

Rendered fromQuickReferenceGuide.Rmdusingknitr::rmarkdownon Nov 08 2024.

Last update: 2018-04-26
Started: 2018-01-17

Readme and manuals

Help Manual

Help pageTopics
Anderson-Darling All-Pairs Comparison TestadAllPairsTest adAllPairsTest.default adAllPairsTest.formula
Anderson-Darling k-Sample TestadKSampleTest adKSampleTest.default adKSampleTest.formula
Anderson-Darling Many-To-One Comparison TestadManyOneTest adManyOneTest.default adManyOneTest.formula
Algae Growth Inhibition Data Setalgae
Plotting PMCMR ObjectsbarPlot
BWS All-Pairs Comparison TestbwsAllPairsTest bwsAllPairsTest.default bwsAllPairsTest.formula
Murakami's k-Sample BWS TestbwsKSampleTest bwsKSampleTest.default bwsKSampleTest.formula
BWS Many-To-One Comparison TestbwsManyOneTest bwsManyOneTest.default bwsManyOneTest.formula
Testing against Ordered Alternatives (Murakami's BWS Trend Test)bwsTrendTest bwsTrendTest.default bwsTrendTest.formula
All-Pairs Comparisons for Simply Ordered Mean RanksumschaAllPairsNashimotoTest chaAllPairsNashimotoTest.default chaAllPairsNashimotoTest.formula
Testing against Ordered Alternatives (Chacko's Test)chackoTest chackoTest.default chackoTest.formula
Chen and Jan Many-to-One Comparisons TestchenJanTest chenJanTest.default
Chen's Many-to-One Comparisons TestchenTest chenTest.default chenTest.formula
Cochran's distributionCochran pcochran qcochran
Cochran TestcochranTest cochranTest.default cochranTest.formula
Testing against Ordered Alternatives (Cuzick's Test)cuzickTest cuzickTest.default cuzickTest.formula
Grubbs D* distributionDgrubbs pdgrubbs
Grubbs Double Outlier TestdoubleGrubbsTest
Multiple Comparisons of Mean Rank SumsdscfAllPairsTest dscfAllPairsTest.default dscfAllPairsTest.formula
Duncan's Multiple Range TestduncanTest duncanTest.aov duncanTest.default duncanTest.formula
Dunnett's T3 TestdunnettT3Test dunnettT3Test.aov dunnettT3Test.default dunnettT3Test.formula
Dunnett's Many-to-One Comparisons TestdunnettTest dunnettTest.aov dunnettTest.default dunnettTest.formula
All-Pairs Comparisons Test for Balanced Incomplete Block DesignsdurbinAllPairsTest durbinAllPairsTest.default
Durbin TestdurbinTest durbinTest.default
Testing Several Treatments With One ControlflignerWolfeTest flignerWolfeTest.default flignerWolfeTest.formula
Conover's All-Pairs Comparisons Test for Unreplicated Blocked DatafrdAllPairsConoverTest frdAllPairsConoverTest.default
Exact All-Pairs Comparisons Test for Unreplicated Blocked DatafrdAllPairsExactTest frdAllPairsExactTest.default
Millers's All-Pairs Comparisons Test for Unreplicated Blocked DatafrdAllPairsMillerTest frdAllPairsMillerTest.default
Nemenyi's All-Pairs Comparisons Test for Unreplicated Blocked DatafrdAllPairsNemenyiTest frdAllPairsNemenyiTest.default frdAllPairsNemenyiTest.formula
Siegel and Castellan's All-Pairs Comparisons Test for Unreplicated Blocked DatafrdAllPairsSiegelTest frdAllPairsSiegelTest.default
House TestfrdHouseTest frdHouseTest.default
Demsar's Many-to-One Test for Unreplicated Blocked DatafrdManyOneDemsarTest frdManyOneDemsarTest.default
Exact Many-to-One Test for Unreplicated Blocked DatafrdManyOneExactTest frdManyOneExactTest.default
Nemenyi's Many-to-One Test for Unreplicated Blocked DatafrdManyOneNemenyiTest frdManyOneNemenyiTest.default
Friedman Rank Sum TestfriedmanTest friedmanTest.default
Games-Howell TestgamesHowellTest gamesHowellTest.aov gamesHowellTest.default gamesHowellTest.formula
Generalized Extreme Studentized Deviate Many-Outlier TestgesdTest
Gore TestgoreTest
Grubbs distributionGrubbs pgrubbs qgrubbs
Grubbs Outlier TestgrubbsTest
Generalized Siegel-Tukey Test of Homogeneity of ScalesGSTTest GSTTest.default GSTTest.formula
Hartley's Maximum F-Ratio Test of Homogeneity of VarianceshartleyTest hartleyTest.default hartleyTest.formula
Hayter-Stone TesthayterStoneTest hayterStoneTest.default hayterStoneTest.formula
Hayter-Stone All-Pairs Comparison TesthsAllPairsTest hsAllPairsTest.default hsAllPairsTest.formula
Testing against Ordered Alternatives (Johnson-Mehrotra Test)johnsonTest johnsonTest.default johnsonTest.formula
Testing against Ordered Alternatives (Jonckheere-Terpstra Test)jonckheereTest jonckheereTest.default jonckheereTest.formula
Kruskal-Wallis Rank Sum TestkruskalTest kruskalTest.default kruskalTest.formula
Conover's All-Pairs Rank Comparison TestkwAllPairsConoverTest kwAllPairsConoverTest.default kwAllPairsConoverTest.formula
Dunn's All-Pairs Rank Comparison Testdefault kwAllPairsDunnTest kwAllPairsDunnTest.default kwAllPairsDunnTest.formula
Nemenyi's All-Pairs Rank Comparison TestkwAllPairsNemenyiTest kwAllPairsNemenyiTest.default kwAllPairsNemenyiTest.formula
Conover's Many-to-One Rank Comparison TestkwManyOneConoverTest kwManyOneConoverTest.default kwManyOneConoverTest.formula
Dunn's Many-to-One Rank Comparison TestkwManyOneDunnTest kwManyOneDunnTest.default kwManyOneDunnTest.formula
Nemenyi-Damico-Wolfe Many-to-One Rank Comparison TestkwManyOneNdwTest kwManyOneNdwTest.default kwManyOneNdwTest.formula
Testing against Ordered Alternatives (Le's Test)leTest leTest.default leTest.formula
Least Significant Difference TestlsdTest lsdTest.aov lsdTest.default lsdTest.formula
Mack-Wolfe Test for Umbrella AlternativesmackWolfeTest mackWolfeTest.default mackWolfeTest.formula
Mandel's h DistributionMandel-h pmandelh qmandelh
Mandel's k DistributionMandel-k pmandelk qmandelk
Mandel's h Test According to E 691 ASTMmandelhTest mandelhTest.default mandelhTest.formula
Mandel's k Test According to E 691 ASTMmandelkTest mandelkTest.default mandelkTest.formula
Multiple Comparisons with One Control (U-test)manyOneUTest manyOneUTest.default manyOneUTest.formula
Brown-Mood All Pairs Median TestmedianAllPairsTest medianAllPairsTest.default medianAllPairsTest.formula
Brown-Mood Median TestmedianTest medianTest.default medianTest.formula
Madhava Rao-Raghunath Test for Testing Treatment vs. ControlmrrTest mrrTest.default mrrTest.formula
Extended One-Sided Studentised Range TestMTest MTest.aov MTest.default MTest.formula
Lu-Smith All-Pairs Comparison Normal Scores TestnormalScoresAllPairsTest normalScoresAllPairsTest.default normalScoresAllPairsTest.formula
Lu-Smith Many-One Comparisons Normal Scores TestnormalScoresManyOneTest normalScoresManyOneTest.default normalScoresManyOneTest.formula
Lu-Smith Normal Scores TestnormalScoresTest normalScoresTest.default normalScoresTest.formula
All-Pairs Comparisons for Simply Ordered Mean RanksumsNPMTest NPMTest.default NPMTest.formula
One-Sided Studentized Range TestosrtTest osrtTest.aov osrtTest.default osrtTest.formula
Page Rank Sum TestpageTest pageTest.default
Pentosan DatasetPentosan
Plotting mandel Objectsplot.mandel
Plotting PMCMR Objectsplot.PMCMR
Power Calculations for Balanced Dunnett's Many-to-One Comparison Testpower.dunnett.test
Power Calculations for Balanced Tukey's Multiple Comparison Testpower.tukey.test
Power calculations for minimum detectable difference of the Williams' testpower.williams.test
Power Simulation for One-Factorial All-Pairs and Many-To-One Comparison TestspowerMCTests
Power Simulation for One-Factorial Single Hypothesis TestspowerOneWayTests
gesdTest Printingprint.gesdTest
Mandel Printingprint print.mandel
osrt Printingprint.osrt
PMCMR Printingprint.PMCMR
PowerOneWayPMCMR Printingprint.powerOneWayPMCMR
PowerPMCMR Printingprint.powerPMCMR
trendPMCMR Printingprint.trendPMCMR
Dunnett DistributionDunnett pDunnett qDunnett
qPCR Curve Analysis MethodsqPCR
All-Pairs Comparisons for Unreplicated Blocked Data (Quade's All-Pairs Test)quadeAllPairsTest quadeAllPairsTest.default
Reviewersreviewers
Scheffe's TestscheffeTest scheffeTest.aov scheffeTest.default scheffeTest.formula
Testing against Ordered Alternatives (Shan-Young-Kang Test)shanTest shanTest.default shanTest.formula
Shirley-Williams TestshirleyWilliamsTest shirleyWilliamsTest.default shirleyWilliamsTest.formula
Siegel-Tukey Rank Dispersion TestsiegelTukeyTest siegelTukeyTest.default siegelTukeyTest.formula
Skillings-Mack TestskillingsMackTest skillingsMackTest.default
Student-Newman-Keuls TestsnkTest snkTest.aov snkTest.default snkTest.formula
Testing against Ordered Alternatives (Spearman Test)spearmanTest spearmanTest.default spearmanTest.formula
Steel's k-Treatments vs. Control TeststeelsKSampleTest steelsKSampleTest.default steelsKSampleTest.formula
Steel's Many-to-One Rank TeststeelTest steelTest.default steelTest.formula
Step Down Trend TestsstepDownTrendTest stepDownTrendTest.default stepDownTrendTest.formula
Summarize an gesdTest Objectsummary.gesdTest
Object Summary for class '"mandel"'summary.mandel
Summarize an osrt Objectsummary.osrt
Summarize an PMCMR Objectsummary.PMCMR
Summarize an trendPMCMR Objectsummary.trendPMCMR
Grouped Summary of an PMCMR ObjectsummaryGroup
Tamhane-Dunnett Many-to-One Comparison TesttamhaneDunnettTest tamhaneDunnettTest.aov tamhaneDunnettTest.default tamhaneDunnettTest.formula
Tamhane's T2 TesttamhaneT2Test tamhaneT2Test.aov tamhaneT2Test.default tamhaneT2Test.formula
Convert a PMCMR or osrt Object to a Data.FrametoTidy
Data from a Dose-Response Experiment with Troutstrout
Tukey's Multiple Comparison TesttukeyTest tukeyTest.aov tukeyTest.default tukeyTest.formula
Ury, Wiggins, Hochberg TesturyWigginsHochbergTest uryWigginsHochbergTest.aov uryWigginsHochbergTest.default uryWigginsHochbergTest.formula
van-der-Waerden's All-Pairs Comparison Normal Scores TestvanWaerdenAllPairsTest vanWaerdenAllPairsTest.default vanWaerdenAllPairsTest.formula
van-der-Waerden's Many-One Comparisons Normal Scores TestvanWaerdenManyOneTest vanWaerdenManyOneTest.default vanWaerdenManyOneTest.formula
van der Waerden's Normal Scores TestvanWaerdenTest vanWaerdenTest.default vanWaerdenTest.formula vanWeardenTest.default
Welchs's Many-To-One Comparison TestwelchManyOneTTest welchManyOneTTest.aov welchManyOneTTest.default welchManyOneTTest.formula
Williams Trend TestwilliamsTest williamsTest.aov williamsTest.default williamsTest.formula