R Observatory: Metrics for eicm version 1.0.3

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

eicm

1.0.3Package record

Explicit Interaction Community Models

0packages depend

3.3Kdownloads / year

–test coverage

9/13flavors OK

Overview

About

Maintained by Miguel PortoCRAN page ↗GitHub ↗Issues ↗

Model fitting and species biotic interaction network topology selection for explicit interaction community models. Explicit interaction community models are an extension of binomial linear models for joint modelling of species communities, that incorporate both the effects of species biotic interactions and the effects of missing covariates. Species interactions are modelled as direct effects of each species on each of the others, and are estimated alongside the effects of missing covariates, modelled as latent factors. The package includes a penalized maximum likelihood fitting function, and a genetic algorithm for selecting the most parsimonious species interaction network topology.

Install

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

install.packages("eicm", 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("miguel-porto/eicm")

Development version from miguel-porto/eicm. 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-eicm

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled. We list this channel from recorded r2u download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

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-eicm

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-eicm

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed). We list this channel from recorded autoCRAN download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

Health

CRAN checks

4NOTE9OK

Check messages

NOTECRAN incoming feasibilityr-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc

Maintainer: ‘Miguel Porto <mpbertolo@gmail.com>’

The BugReports field in DESCRIPTION has
  https://github.com/miguel-porto/eicm
which should likely be
  https://github.com/miguel-porto/eicm/issues
instead.

NOTEdependencies in R coder-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc

Namespace in Imports field not imported from:
  ‘snow’
All declared Imports should be used.

CRAN check page ↗

Slowest check: 6.7 min · r-devel-windows-x86_64

Status changes

NOTE9 OK, 4 NOTENow
NOTE10 OK, 4 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.0.3

READMEYes · 114 wordsVignettesYes · 1 · dynamicNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 23includes a package overview page
Examples that run: 50%4 run in a plain check · 4 only when donttest examples are enabled (R CMD check --as-cran)
Exported functions with examples: 45%
Documented parameters: 95%
Return-value docs: 100%
Help pages citing references: 0%

Vignettes (1)

Explicit Interaction Community Models

How these are measured

Downloads

3.3K

CRAN downloads in the past year

Rank #12,327 · ~9/day · ~273/mo

Releases R versions

Daily download trend is not available in this view yet.

29230 days

90190 days

3.3K1 year

Compare downloads with other packages →

Also on363 r2u5 autocran115 c2d4u

How downloads are counted

Repository

miguel-porto/eicm ↗Account: miguel-porto

6Stars

1Forks

0Open issues

0Open PRs

1Releases

43Commits

1Commit identities

joint-modelsecological-modellingcommunity-modelingmissing-covariatesspecies-interactionsjsdmspecies-distribution-modellingcran

43 commits · Last activity 2023-05-08

Responsiveness

How these are sampled

PRs merged (all time): 100%
Median days to close, 50 most recently updated closed issues: not measured
Median days to close, 50 most recently updated closed PRs: 0

Stars over time

2023-02-20 · 62026-07-07 · 6

How these are measured

PracticesBeta

2 development-tooling and community-health practices detected across 1 family in the upstream repository

Checks run against github.com/miguel-porto/eicm on 2026-10-22.

Continuous integration (2)

GitHub ActionsR CMD check workflow

The R CMD check workflow runs on macOS

How this is detected·Detection ruleset v4 (2026-10-20)

Dependencies

Declared dependencies

11 external dependencies (excludes base and recommended)

Installing eicm adds 12 packages (5 with compiled code, 8.9 MB of source tarballs). Heaviest: GA 4.8 MB, Rcpp 1.8 MB, RcppArmadillo 1.0 MB.

Depends (1)

R >= 3.5.0

Imports (11)

methodsparallelGA snow doSNOW iterators pso ucminf foreachgraphicsoptimParallel

LinkingTo (0)

none

Suggests (3)

igraph knitr rmarkdown

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

How these are counted

Code & Tests

Datasets

People & History

People (2)

Miguel Porto

Author, Maintainer since 1.0.0 (2020)

Pedro Beja

Author

Releases (3)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
R
R 4.5.0 released · 2025-04-11
R
R 4.4.0 released · 2024-04-24
unarchivedReturned to CRAN
2023-05-06
1.0.3Latest
record
2023-05-06 · current release · diff ↗ ·
added 3 exports
interactionPlot, isCyclic, plotNetworkFromMatrix
archivedRemoved from CRAN
2023-05-05
issues were not corrected in time
R
R 4.3.0 released · 2023-04-21
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
unarchivedReturned to CRAN
2020-10-20
1.0.1
record
2020-10-20 · diff ↗
archivedRemoved from CRAN
2020-10-02
check issues were not corrected in time
R
R 4.0.0 released · 2020-04-24
1.0.0
record
2020-03-26
R
R 3.6.0 released · 2019-04-26

Package metadata

First published: 2020-03-26
Total releases: 3 / 6 yrs
License: GPL (>= 2) OSI
Minimum R: ≥ 3.5.0
Bundled data: 8.2 KB / 1 file
Download size: 600 KB

Appears in task views

Missing Data

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("eicm")

Format

Porto, M., & Beja, P. (2023). eicm: Explicit Interaction Community Models (Version 1.0.3) [Computer software]. https://doi.org/10.32614/CRAN.package.eicm

This package has no citation file, so citation() returns this entry built from DESCRIPTION.

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 eicm version 1.0.3 [Data set]. HJJB, LLC. Data release v2026-10-23. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-23, which the citation names so these numbers can be found later. More on citing and the projects behind them.

Report a problem with this page →