Author: Thorsten Pohlert
Date: 2024-09-08

# PMCMR Quick Reference Guide

#### Thorsten Pohlert

#### 2024-09-08

## Introduction

In PMCMRplus function names have changed from `period.separated` in PMCMR (<= 4.1) to `lowerCamelCase`.

## One factorial layout

### Omnibus tests

FN in PMCMRplus | PMCMR v4.1 | Meaning
--- | --- | ---
`kruskalTest` | – | Kruskal-Wallis test
`vanWaerdenTest` | `vanWaerden.Test` | van der Waerden’s normal scores test
`adKSampleTest` | – | Anderson-Darling k-Sample Test
`bwsKSampleTest` | – | Murakami k-Sample BWS normal Test
`normalScoresTest` | – | Lu-Smith Normal Score Test

### Many-to-One comparisons

FN in PMCMRplus | PMCMR v4.1 | Meaning
--- | --- | ---
`dunnettTest` | – | Dunnett’s test for multiple comparisons with one control
`ManyOneUTest` | – | Multiple comparisons with one control (multiple U-test)
`kwManyOneConoverTest` | – | Pairwise Test for Multiple Comparisons of Mean Rank Sums with one control (Conover’s-Test)
`kwManyOneDunnTest` | `dunn.test.control` | Pairwise Test for Multiple Comparisons of Mean Rank Sums with one control (Dunn’s-Test)
`kwManyOneNdwTest` | – | Pairwise Test for Multiple Comparisons of Mean Rank Sums with one control (Nemenyi-Damico-Wolfe Test)
`tamhaneDunnettTest` | – | Tamhane-Dunnett’s test for multiple comparisons with one control
`vanWaerdenManyOneTest` | – | Multiple Comparisons of normal scores (van der Waerden test)
`adManyOneTest` | – | Anderson-Darling Many-To-One Comparison Test
`bwsManyOneTest` | – | BWS Many-To-One Comparison Test

### Trend tests

FN in PMCMRplus | PMCMR v4.1 | Meaning
--- | --- | ---
`cuzickTest` | – | Cuzick test for testing independent samples against ordered alternatives
`johnsonTest` | – | Johnson-Mehrotra test for testing independent samples against ordered alternatives
`jonckheereTest` | `jonckheere.test` | Jonckheere-Terpstra test for testing k independent samples against ordered alternatives
`leTest` | – | Le’s test for testing k independent samples against ordered alternatives
`spearmanTest` | – | Spearman test for testing k independent samples against ordered alternatives
`bwsTrendTest` | – | Murakami’s BWS Trend Test
`chackoTest` | – | Chacko’s Test

### All-pairs comparisons

FN in PMCMRplus | PMCMR v4.1 | Meaning
--- | --- | ---
`dscfAllPairsTest` | – | Multiple Comparisons after Dwass, Steele, Critchlow and Fligner
`dunnettT3Test` | – | Dunnett’s T3 test for multiple comparisons with unequal variances
`gamesHowellTest` | – | Games-Howel test for multiple comparisons with unequal variances
`kwAllPairsConoverTest` | `posthoc.kruskal.conover.test` | Multiple Comparisons of Mean Rank Sums (Conover’s-Test)
`kwAllPairsDunnTest` | `posthoc.kruskal.dunn.test` | Pairwise Test for Multiple Comparisons of Mean Rank Sums (Dunn’s-Test)
`kwAllPairsNemenyiTest` | `posthoc.kruskal.nemenyi.test` | Pairwise Test for Multiple Comparisons of Mean Rank Sums (Nemenyi-Tests)
`lsdTest` | – | Least significant difference test for multiple comparisons
`scheffeTest` | – | Scheffe’s test for multiple comparisons
`tamhaneT2Test` | – | Tamhane’s T2 test for multiple comparisons with unequal variances
`tukeyTest` | – | Tukey’s test for multiple comparisons
`uryWigginsHochbergTest` | – | Ury, Wiggins, Hochberg test for multiple comparisons with unequal variances
`vanWaerdenAllPairsTest` | `posthoc.vanWaerden.test` | Multiple Comparisons of normal scores (van der Waerden test)
`adAllPairsTest` | – | Anderson-Darling All-Pairs Comparison Test
`bwsAllPairsTest` | – | BWS All-Pairs Comparison Test

## Two factorial layout

### Omnibus tests

FN in PMCMRplus | PMCMR v4.1 | Meaning
--- | --- | ---
`durbinTest` | `durbin.test` | Durbin’s test for two-way balanced incomplete block design
`friedmanTest` | – | Friedman Test
`skillingsMackTest` | – | Skillings-Mack Test
`GoreTest` | – | Gore Test

### Many-to-One comparisons

FN in PMCMRplus | PMCMR v4.1 | Meaning
--- | --- | ---
`frdManyOneDemsarTest` | – | Multiple Comparisons of Mean Rank Sums with a Control for Unreplicated Blocked Data (Demsar-Test)
`frdManyOneExactTest` | – | Multiple Comparisons of Mean Rank Sums with a control for Unreplicated Blocked Data (Exact-Test)
`frdManyOneNemenyiTest` | – | Multiple Comparisons of Mean Rank Sums with a Control for Unreplicated Blocked Data (Nemenyi-Test)

### Trend test

FN in PMCMRplus | PMCMR v4.1 | Meaning
--- | --- | ---
`pageTest` | – | Page Rank Sum Test

### All-pairs comparisons

FN in PMCMRplus | PMCMR v4.1 | Meaning
--- | --- | ---
`durbinAllPairsTest` | `posthoc.durbin.test` | Multiple Comparisons of Mean Rank Sums (Durbin’s test)
`frdAllPairsConoverTest` | `posthoc.friedman.conover.test` | Multiple Comparisons of Rank Sums for Unreplicated Blocked Data (Conover-Test)
`frdAllPairsExactTest` | – | Multiple Comparisons of Mean Rank Sums for Unreplicated Blocked Data (Exact-Test)
`frdAllPairsMillerTest` | – | Multiple Comparisons of Mean Rank Sums for Unreplicated Blocked Data (Miller-Test)
`frdAllPairsNemenyiTest` | `posthoc.friedman.nemenyi.test` | Multiple Comparisons of Mean Rank Sums for Unreplicated Blocked Data (Nemenyi-Test)
`frdAllPairsSiegelTest` | – | Multiple Comparisons of Mean Rank Sums for Unreplicated Blocked Data (Siegel-Test)
`quadeAllPairsTest` | `posthoc.quade.test` | Multiple Comparisons of Rank Sums for Unreplicated Blocked Data (Quade multiple comparison test)