R Observatory: Metrics for AMDconfigurations version 0.1.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

AMDconfigurations

0.1.0

Geometric Analysis of Configurations in High-Dimensional Spaces

0packages depend

2.3Kdownloads / year

58.8%test coverage

13/13checks pass

Overview

About

Maintained by Manuel MendozaFirst published 2026-03-171 releasesCRAN page ↗GitHub ↗

Tools for analysing the geometry of configurations in high-dimensional spaces using the Average Membership Degree (AMD) framework and synthetic configuration generation. The package supports a domain-agnostic approach to studying the shape, dispersion, and internal structure of point clouds, with applications across biological and ecological datasets, including those derived from deep-time records. The AMD framework builds on the idea that strongly coupled systems may occupy a limited set of recurrent regimes in state space, producing high-occupancy regions separated by sparsely populated transitional configurations. The package focuses on detecting these concentration patterns and quantifying their geometric definition without assuming any underlying dynamical model. It provides AMD curve computation, cluster assignment, and sigma-equivalent estimation, together with S3 methods for plotting, printing, and summarising AMD and sigma-equivalent objects. Mendoza (2025) https://mmendoza1967.github.io/AMDconfigurations/.

Install

R (CRAN)pak (dev)Ubuntu (r2u)Fedora (COPR)openSUSE (OBS)

install.packages("AMDconfigurations", repos = "https://cloud.r-project.org/")

Installs the current CRAN release. Prebuilt binaries on Windows and macOS.

if (!requireNamespace("pak", quietly = TRUE))
  install.packages("pak", repos = "https://cloud.r-project.org/")
pak::pak("mmendoza1967/AMDconfigurations")

Development version from mmendoza1967/AMDconfigurations. Installs pak first if it is not already available.

Release

# enable cranapt (r2u) if it is not already set up, then install
grep -rqs r2u.stat.illinois.edu /etc/apt/sources.list /etc/apt/sources.list.d/ \
  || curl -fsSL https://raw.githubusercontent.com/eddelbuettel/r2u/master/inst/scripts/add_cranapt_noble.sh | sudo bash
sudo apt install -y r-cran-amdconfigurations

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled.

bspm (used by r2u) also needs make: sudo apt install make

# enable the iucar/cran COPR if it is not already present, then install
ls /etc/yum.repos.d/*iucar*cran*.repo >/dev/null 2>&1 \
  || sudo dnf copr enable -y iucar/cran
sudo dnf install -y R-CRAN-AMDconfigurations

RPMs from the iucar/cran COPR, rebuilt from CRAN.

For install.packages() integration in R, also: sudo dnf install R-CoprManager

# add the autoCRAN OBS repo (Tumbleweed) if it is missing, then install
zypper -q lr | grep -qi autoCRAN \
  || sudo zypper addrepo https://download.opensuse.org/repositories/devel:/languages:/R:/autoCRAN/openSUSE_Tumbleweed/devel:languages:R:autoCRAN.repo
sudo zypper install -y R-AMDconfigurations

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed).

Health

CRAN checks

13OK

Slowest check: 1.6 min · r-oldrel-macos-x86_64

Code health

Yes

Tests · ratio 0.14

58.8%

Coverage · measured lines

100%

Documentation · exports

2

Dependencies · direct

Check history

OK2026-08-05
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
NOTE2026-08-01
12 OK · 1 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
OK2026-03-18
5 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 499 wordsVignettesYes · dynamicpkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 0%
Documented parameters: 100%
Return-value docs: 100%
References docs: 0%

Downloads

2.3K

CRAN downloads in the past year

Rank #7,902 · ~6/day · ~195/mo

Releases R versions

Daily download trend is not available in this view yet.

20630 days

1.2K90 days

2.3K1 year

Compare downloads with other packages →

Also on50 r2u28 autocran

Repository

GitHub ↗ mmendoza1967/amdconfigurations

0Stars

0Forks

0Open issues

0Open PRs

0Releases

Last activity 2026-02-19

Repository practices

Upstream repositoryBeta

2 development-tooling and community-health practices detected across 2 families in the upstream repository

Checks run against github.com/mmendoza1967/amdconfigurations on 2026-08-09.

Continuous integration (1)

GitHub Actions

Lint, format, editor (1)

RStudio project

How this is detected·Detection ruleset v1 (2026-07-18)

Dependencies

Declared dependencies

5 external dependencies (excludes base and recommended)

Depends (1)

R >= 4.1

Imports (2)

e1071stats

LinkingTo (0)

none

Suggests (4)

testthat knitr rmarkdown pkgdown

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (1)

Maintainer (1)

Manuel Mendoza

Author, Maintainer

Authors (1)

Manuel Mendoza

Author, Maintainer

Package Timeline

1 release. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
0.1.0Latest
2026-03-17 · current release
R
R 4.5.0 released · 2025-04-11

Package metadata

First published: 2026-03-17
Total releases: 1 / 1 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 4.1
Bundled data: 1.7 MB / 3 files
Download size: not tracked yet
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("AMDconfigurations")

Format

Mendoza, M. (2026). AMDconfigurations: Geometric Analysis of Configurations in High-Dimensional Spaces (Version 0.1.0) [Computer software]. https://doi.org/10.32614/CRAN.package.AMDconfigurations

This is what citation() produces when a package has no citation file of its own. If it prints something else, use that.

Cite the R Observatory

For a number measured here: a download total, a coverage figure, an archival date.

Format

APA

Balamuta, J. J. (2026). R Observatory: Metrics for AMDconfigurations version 0.1.0 [Data set]. HJJB, LLC. Data release v2026-08-15. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-15, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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