R Observatory: Metrics for bamm version 0.6.2

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

bamm

0.6.2Package record

Species Distribution Models as a Function of Biotic, Abiotic and Movement Factors (BAM)

0packages depend

4Kdownloads / year

82.9%test coverage

13/13flavors OK

Overview

About

Maintained by Luis Osorio-OlveraCRAN page ↗GitHub ↗Website ↗Issues ↗

Species Distribution Modeling (SDM) is a practical methodology that aims to estimate the area of distribution of a species. However, most of the work has focused on estimating static expressions of the correlation between environmental variables. The outputs of correlative species distribution models can be interpreted as maps of the suitable environment for a species but not generally as maps of its actual distribution. Soberón and Peterson (2005) doi:10.17161/bi.v2i0.4 presented the BAM scheme, a heuristic framework that states that the occupied area of a species occurs on sites that have been accessible through dispersal (M) and have both favorable biotic (B) and abiotic conditions (A). The 'bamm' package implements classes and functions to operate on each element of the BAM and by using a cellular automata model where the occupied area of a species at time t is estimated by the multiplication of three binary matrices: one matrix represents movements (M), another abiotic -niche- tolerances (A), and a third, biotic interactions (B). The theoretical background of the package can be found in Soberón and Osorio-Olvera (2023) doi:10.1111/jbi.14587.

Install

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

install.packages("bamm", 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("luismurao/bamm")

Development version from luismurao/bamm. 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-bamm

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-bamm

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-bamm

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

13OK

CRAN check page ↗

Slowest check: 13.7 min · r-oldrel-windows-x86_64

Status changes

OK13 OK2026-09-08
ERROR12 OK, 1 ERROR2026-09-07
OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK13 OK2026-06-09

Show 4 earlier changesHide 4 earlier changes

ERROR12 OK, 1 ERROR2026-06-08
OK14 OK2026-04-22
ERROR13 OK, 1 ERROR2026-04-18
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 0.6.2

READMEYes · 362 wordsVignettesYes · 1 · dynamicNEWSYes · 100% structured · mentions 0.6.2Citation fileNoWebsiteYes · pkgdown

Help pages: 35
Examples that run: 65%15 run in a plain check · 8 only when donttest examples are enabled (R CMD check --as-cran)
Exported functions with examples: 75%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 40% with a bibliography file

Vignettes (1)

bamm HTML

How these are measured

Downloads

4K

CRAN downloads in the past year

Rank #7,378 · ~11/day · ~330/mo

Releases R versions

Daily download trend is not available in this view yet.

47730 days

1.2K90 days

4K1 year

Compare downloads with other packages →

Also on430 r2u45 autocran

How downloads are counted

Repository

luismurao/bamm ↗Account: luismurao

2Stars

0Forks

1Open issues

0Open PRs

0Releases

287Commits

1Commit identities

287 commits · Last activity 2026-04-14 · 0% stars, 30d · Default branch at 0.7.1, ahead of CRAN 0.6.2 (checked 2026-10-21)

Responsiveness

How these are sampled

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

Stars over time

2023-01-31 · 12026-07-07 · 2

How these are measured

PracticesBeta

9 development-tooling and community-health practices detected across 5 families in the upstream repository

Checks run against github.com/luismurao/bamm on 2026-10-21.

Continuous integration (2)

GitHub ActionsR CMD check workflow

The R CMD check workflow runs on Linux, macOS and Windows, and on R-devel

Docs source (3)

pkgdown

GitHub Pages site last deployed 2026-02-15 · The repository has a site deploy workflow

Coverage (1)

Coverage reporting (Codecov)

CRAN release process (2)

cran-comments.mdCRAN-SUBMISSION

Show all practicesHide 1 practice

Lint, format, editor (1)

RStudio project

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

Dependencies

Declared dependencies

21 external dependencies (excludes base and recommended)

Installing bamm adds 75 packages (44 with compiled code, 67 MB of source tarballs). Heaviest: sf 9.3 MB, bslib 5.6 MB, igraph 4.8 MB.

Depends (1)

R >= 3.5.0

Imports (19)

animation dplyr furrr futuregraphicsgrDevicesigraph leaflet (>= 2.0)magrittrMatrixmethodspurrr raster Rcpp Rdpack RSpectra spstatsutils

LinkingTo (2)

Rcpp RcppArmadillo

Suggests (6)

knitr rmarkdown testthat crosstalk plotly spelling

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 (3)

Luis Osorio-Olvera

Author, Maintainer since 0.4.3 (2022)

Jorge Soberón

Author

Rusby G. Contreras-Díaz

Contributor · added in 0.5.0

Releases (5)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
0.6.2Latest
record
2026-02-17 · current release · diff ↗
0.6.1
record
2026-02-17 · diff ↗ ·
removed 1 export
pol2pam

added 1 export
g_area
0.6.0
record
2026-02-03 · diff ↗ ·
removed 1 export
g_area

added 1 export
pol2pam
R
R 4.5.0 released · 2025-04-11
0.5.0
record
2024-07-06 · diff ↗
R
R 4.4.0 released · 2024-04-24
R
R 4.3.0 released · 2023-04-21
0.4.3
record
2022-12-20
R
R 4.2.0 released · 2022-04-22

Package metadata

First published: 2022-12-20
Total releases: 5 / 4 yrs
License: GPL (>= 3) OSI
Minimum R: ≥ 3.5.0
Download size: 720 KB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("bamm")

Format

Osorio-Olvera, L., Contreras-Díaz, R. G., & Soberón, J. (2026). bamm: Species Distribution Models as a Function of Biotic, Abiotic and Movement Factors (BAM) (Version 0.6.2) [Computer software]. https://doi.org/10.32614/CRAN.package.bamm

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 bamm version 0.6.2 [Data set]. HJJB, LLC. Data release v2026-10-24. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-24, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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