Introduction | Simple randomisation | The shuffle() and shuffleSet() functions | Generating restricted permutations | Generating sets of permutations with shuffleSet() | Defining permutation designs | Set the number of permutations | The levels of the permutation hierarchy | Permuting samples at the lowest level | Permuting samples at the Plot level | Specifying blocks; the top of the permute hierarchy | Examples | Using permute in R functions | Accesing and changing permutation designs | Computational details
Package: permute 0.9-10
permute: Functions for Generating Restricted Permutations of Data
A set of restricted permutation designs for freely exchangeable, line transects (time series), and spatial grid designs plus permutation of blocks (groups of samples) is provided. 'permute' also allows split-plot designs, in which the whole-plots or split-plots or both can be freely-exchangeable or one of the restricted designs. The 'permute' package is modelled after the permutation schemes of 'Canoco 3.1' (and later) by Cajo ter Braak.
Authors:
permute_0.9-10.tar.gz
permute_0.9-10.zip(r-4.7)permute_0.9-10.zip(r-4.6)permute_0.9-10.zip(r-4.5)
permute_0.9-10.tgz(r-4.6-any)permute_0.9-10.tgz(r-4.5-any)
permute_0.9-10.tar.gz(r-4.7-any)permute_0.9-10.tar.gz(r-4.6-any)
permute_0.9-10.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
permute/json (API)
| # Install 'permute' in R: |
| install.packages('permute', repos = c('https://gavinsimpson.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/gavinsimpson/permute/issues
Datasets:
- jackal - Mandible lengths of male and female golden jackals
permutationrestricted-permutations
Last updated from:688cca6db0. Checks:9 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel-x86_64 | OK | 115 | ||
| source / vignettes | OK | 178 | ||
| linux-release-x86_64 | OK | 120 | ||
| macos-release-arm64 | OK | 101 | ||
| macos-oldrel-arm64 | OK | 79 | ||
| windows-devel | OK | 70 | ||
| windows-release | OK | 110 | ||
| windows-oldrel | OK | 112 | ||
| wasm-release | OK | 106 |
Exports:allPermsas.allPermsBlockscheckgetAllpermsgetBlocksgetColgetCompletegetConstantgetControlgetDimgetHowgetMakegetMaxpermgetMinpermgetMirrorgetNpermgetObservedgetPlotsgetRowgetStratagetTypegetWithinhownumPermspermutePlotssetAllperms<-setBlocks<-setCol<-setComplete<-setConstant<-setDim<-setMake<-setMaxperm<-setMinperm<-setMirror<-setNperm<-setObserved<-setPlots<-setRow<-setStrata<-setType<-setWithin<-shuffleshuffleFreeshuffleGridshuffleSeriesshuffleSetshuffleStrataWithin
Dependencies:
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Complete enumeration of all possible permutations | allPerms as.allPerms as.matrix.allPerms print.allPerms print.summary.allPerms summary.allPerms |
| Utility functions for complete enumeration of all possible permutations | allFree allGrid allSeries allStrata |
| Utility functions for permutation schemes | check print.check print.summary.check summary.check |
| Extractor functions to access components of a permutation design | get-methods getAllperms getAllperms.default getAllperms.how getBlocks getBlocks.default getBlocks.how getBlocks.permControl getCol getCol.default getCol.how getCol.permControl getCol.Plots getCol.Within getComplete getComplete.default getComplete.how getComplete.permControl getConstant getConstant.default getConstant.how getConstant.permControl getConstant.Within getControl getControl.allPerms getControl.default getDim getDim.default getDim.how getDim.permControl getDim.Plots getDim.Within getHow getMake getMake.default getMake.how getMaxperm getMaxperm.default getMaxperm.how getMaxperm.permControl getMinperm getMinperm.default getMinperm.how getMinperm.permControl getMirror getMirror.default getMirror.how getMirror.permControl getMirror.Plots getMirror.Within getNperm getNperm.default getNperm.how getNperm.permControl getObserved getObserved.default getObserved.how getPlots getPlots.default getPlots.how getPlots.permControl getRow getRow.default getRow.how getRow.permControl getRow.Plots getRow.Within getStrata getStrata.default getStrata.how getStrata.permControl getStrata.Plots getType getType.default getType.how getType.permControl getType.Plots getType.Within getWithin getWithin.default getWithin.how getWithin.permControl |
| How to define a permutation design? | Blocks how Plots print.how Within |
| Mandible lengths of male and female golden jackals | jackal |
| Number of observations in a given object | nobs-methods nobs.character nobs.data.frame nobs.factor nobs.integer nobs.matrix nobs.numeric |
| Number of possible permutations for a given object | numPerms |
| Replacement functions to set components of a permutation design | set-methods setAllperms<- setAllperms<-.default setAllperms<-.how setAllperms<-.permControl setBlocks<- setBlocks<-.default setBlocks<-.how setBlocks<-.permControl setCol<- setCol<-.default setCol<-.how setCol<-.Plots setCol<-.Within setComplete<- setComplete<-.default setComplete<-.how setComplete<-.permControl setConstant<- setConstant<-.default setConstant<-.how setConstant<-.Plots setConstant<-.Within setDim<- setDim<-.default setDim<-.how setDim<-.Plots setDim<-.Within setMake<- setMake<-.default setMake<-.how setMaxperm<- setMaxperm<-.default setMaxperm<-.how setMaxperm<-.permControl setMinperm<- setMinperm<-.default setMinperm<-.how setMinperm<-.permControl setMirror<- setMirror<-.default setMirror<-.how setMirror<-.Plots setMirror<-.Within setNperm<- setNperm<-.default setNperm<-.how setNperm<-.permControl setObserved<- setObserved<-.default setObserved<-.how setPlots<- setPlots<-.default setPlots<-.how setRow<- setRow<-.default setRow<-.how setRow<-.Plots setRow<-.Within setStrata<- setStrata<-.default setStrata<-.how setStrata<-.Plots setType<- setType<-.default setType<-.how setType<-.Plots setType<-.Within setWithin<- setWithin<-.default setWithin<-.how |
| Unrestricted and restricted permutations | permute shuffle |
| Utility functions for unrestricted and restricted permutations | shuffle-utils shuffleFree shuffleGrid shuffleSeries shuffleStrata |
| Generate a set of permutations from the specified design. | as.matrix.permutationMatrix shuffleSet |
