Data

Tools

Indexes

Applications

Experiments

Open Source Science

permute

Restricted permutations

https://github.com/gavinsimpson/permute

Science Score: 13.0%

This score indicates how likely this project is to be science-related based on various indicators:

  • ○
    CITATION.cff file
  • ✓
    codemeta.json file
    Found codemeta.json file
  • ○
    .zenodo.json file
  • ○
    DOI references
  • ○
    Academic publication links
  • ○
    Committers with academic emails
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (8.4%) to scientific vocabulary

Keywords

permutation r r-packages restricted-permutations
Last synced: 6 months ago · JSON representation

Repository

Restricted permutations

Basic Info
Statistics
  • Stars: 24
  • Watchers: 5
  • Forks: 4
  • Open Issues: 9
  • Releases: 8
Topics
permutation r r-packages restricted-permutations
Created over 11 years ago · Last pushed 8 months ago
Metadata Files
Readme Changelog License

README.md

Restricted permutations with R

CRAN version R-CMD-check codecov

What is permute?

permute generates permutations from a range of restricted permutation designs.

Permute provides an R implementation of the permutation schemes developed by Cajo ter Braak and made available in the Canoco software, version 3.1 (ter Braak, 1990). These permutation schemes draw upon ideas from an earlier paper by Besag & Clifford (1989).

Several types of permutation are available in permute:

  • Free permutation of objects
  • Time series or line transect designs, where the temporal or spatial ordering is preserved.
  • Spatial grid designs, where the spatial ordering is preserved in both coordinate directions
  • Permutation of plots or groups of samples.
  • Blocking factors which restrict permutations to within blocks. The preceding designs can be nested within blocks, allowing analysis of hierarchical designs (e.g. split plot designs)

References

Besag, J. and Clifford, P. (1989) Generalized Monte Carlo significance tests. Biometrika 76; 633–642.

ter Braak, C. J. F. (1990). Update notes: CANOCO version 3.1. Wageningen: Agricultural Mathematics Group. (UR).

Owner

  • Name: Gavin Simpson
  • Login: gavinsimpson
  • Kind: user
  • Location: Denmark
  • Company: Aarhus University

GitHub Events

Total
  • Push event: 5
Last Year
  • Push event: 5

Committers

Last synced: 10 months ago

All Time
  • Total Commits: 457
  • Total Committers: 2
  • Avg Commits per committer: 228.5
  • Development Distribution Score (DDS): 0.042
Past Year
  • Commits: 6
  • Committers: 1
  • Avg Commits per committer: 6.0
  • Development Distribution Score (DDS): 0.0
Top Committers
Name Email Commits
Gavin Simpson u****s@g****m 438
Jari Oksanen j****n@o****i 19
Committer Domains (Top 20 + Academic)
oulu.fi: 1

Issues and Pull Requests

Last synced: 7 months ago

All Time
  • Total issues: 30
  • Total pull requests: 4
  • Average time to close issues: 3 months
  • Average time to close pull requests: 7 days
  • Total issue authors: 12
  • Total pull request authors: 1
  • Average comments per issue: 2.4
  • Average comments per pull request: 1.25
  • Merged pull requests: 3
  • Bot issues: 0
  • Bot pull requests: 0
Past Year
  • Issues: 1
  • Pull requests: 0
  • Average time to close issues: N/A
  • Average time to close pull requests: N/A
  • Issue authors: 1
  • Pull request authors: 0
  • Average comments per issue: 0.0
  • Average comments per pull request: 0
  • Merged pull requests: 0
  • Bot issues: 0
  • Bot pull requests: 0
View more stats
Top Authors
Issue Authors
  • gavinsimpson (15)
  • brendanf (2)
  • hadley (2)
  • jarioksa (2)
  • LindsayVass (2)
  • DarioS (1)
  • andersgs (1)
  • dbaranger (1)
  • MichaelChirico (1)
  • glaroc (1)
  • caijun (1)
Pull Request Authors
  • jarioksa (4)
Top Labels
Issue Labels
bug (11) enhancement (8) CRAN (2) wontfix (1) documentation (1) question (1) duplicate (1) invalid (1)
Pull Request Labels

Packages

  • Total packages: 2
  • Total downloads:
    • cran 64,824 last-month
  • Total docker downloads: 989,582
  • Total dependent packages: 35
    (may contain duplicates)
  • Total dependent repositories: 82
    (may contain duplicates)
  • Total versions: 15
  • Total maintainers: 1
cran.r-project.org: permute

Functions for Generating Restricted Permutations of Data

  • Versions: 12
  • Dependent Packages: 32
  • Dependent Repositories: 69
  • Downloads: 64,824 Last month
  • Docker Downloads: 989,582
Rankings
Downloads: 1.7%
Dependent packages count: 2.4%
Dependent repos count: 2.8%
Average: 8.0%
Stargazers count: 11.4%
Forks count: 12.4%
Docker downloads count: 17.3%
Maintainers (1)
ucfagls@gmail.com
Last synced: 6 months ago
conda-forge.org: r-permute

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.

  • Versions: 3
  • Dependent Packages: 3
  • Dependent Repositories: 13
Rankings
Dependent repos count: 9.8%
Dependent packages count: 15.6%
Average: 32.0%
Stargazers count: 48.4%
Forks count: 54.2%
Last synced: 6 months ago

Dependencies

DESCRIPTION cran
  • R >= 2.14.0 depends
  • stats * imports
  • bookdown * suggests
  • knitr * suggests
  • parallel * suggests
  • rmarkdown * suggests
  • sessioninfo * suggests
  • testthat >= 0.5 suggests
  • vegan >= 2.0 suggests
.github/workflows/R-CMD-check.yaml actions
  • actions/checkout v2 composite
  • r-lib/actions/check-r-package v2 composite
  • r-lib/actions/setup-pandoc v2 composite
  • r-lib/actions/setup-r v2 composite
  • r-lib/actions/setup-r-dependencies v2 composite
.github/workflows/build-pkgdown-pak.yaml actions
  • actions/checkout v2 composite
  • r-lib/actions/setup-pandoc v1 composite
  • r-lib/actions/setup-r v1 composite
  • r-lib/actions/setup-r-dependencies v1 composite
.github/workflows/test-coverage-pak.yaml actions
  • actions/checkout v2 composite
  • r-lib/actions/setup-r v1 composite
  • r-lib/actions/setup-r-dependencies v1 composite