R Observatory: Metrics for secr version 5.4.3

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

secr

5.4.3

Spatially Explicit Capture-Recapture

6packages depend

29.4Kdownloads / year

32.0%test coverage

11/13checks pass

Overview

About

Maintained by Murray EffordFirst published 2010-03-1187 releasesCRAN page ↗GitHub ↗

Functions to estimate the density and size of a spatially distributed animal population sampled with an array of passive detectors, such as traps, or by searching polygons or transects. Models incorporating distance-dependent detection are fitted by maximizing the likelihood. Tools are included for data manipulation and model selection.

Install

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

install.packages("secr", 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("MurrayEfford/secr")

Development version from MurrayEfford/secr. 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-secr

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-secr

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-secr

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

Health

CRAN checks

2NOTE11OK

Failing flavors

NOTE r-devel-linux-x86_64-debian-clang
NOTE r-devel-linux-x86_64-debian-gcc

Slowest check: 26.7 min · r-oldrel-windows-x86_64

Code health

Yes

Tests · ratio 0.02

32.0%

Coverage · measured lines

100%

Documentation · exports

19

Dependencies · direct

Check history

NOTE2026-07-11
12 OK · 1 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
OK2026-05-20
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-05-19
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-04-25
12 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-03-30
11 OK · 2 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE

Show 1 earlier snapshots

WARNING2026-03-10
10 OK · 3 NOTE · 1 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMENoVignettesYes · dynamicpkgdown siteNoNEWSYes · 67% structuredCode of conductNoContributing guideNo

Examples that run: 75%
Documented parameters: 97%
Return-value docs: 97%
References docs: 46%

Downloads

29.4K

CRAN downloads in the past year

Rank #3,026 · ~81/day · ~2.5K/mo

Releases R versions

Daily download trend is not available in this view yet.

1K30 days

4.3K90 days

29.4K1 year

Compare downloads with other packages →

Also on637 r2u17 autocran111 c2d4u

Repository

GitHub ↗ murrayefford/secr

7Stars

2Forks

6Open issues

0Open PRs

0Releases

969Commits

2Contributors

969 commits · Last activity 2026-08-16 · +16.7% stars, 30d

Stars over time

2025-08-12 · 52026-08-14 · 7

Repository practices

Upstream repositoryBeta

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

Checks run against github.com/murrayefford/secr on 2026-08-16.

Continuous integration (1)

GitHub Actions

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

Dependencies

Declared dependencies

24 external dependencies (excludes base and recommended)

Depends (2)

R >= 3.5.0methods

Imports (18)

secrfunc abindgraphicsgrDevicesMASSmgcvmvtnormnlmeparallelraster Rcpp RcppParallel sfstatsstringr terratoolsutils

LinkingTo (3)

BH Rcpp RcppParallel

Suggests (12)

gdistance igraph knitr readxl rmarkdown sp spatstat (>= 3.3-3)spatstat.geom spatstat.random spcosa spsurvey (>= 5.3.0)testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

6direct

0indirect

ipsecr openCR secrdesign secrlinear camtrapR ScatterDensity

Code & Tests

People & History

People (4)

Maintainer (1)

Murray Efford

Author, Maintainer

Authors (1)

Murray Efford

Author, Maintainer

Contributors (3)

Yan Ru Choo

Contributor · added in 5.0.0

David Fletcher

Contributor · added in 4.6.1

Philipp Jund

Contributor · added in 4.6.0

Package Timeline

87 releases. Pick two to compare their code metrics. R releases are shown for context.

5.4.3Latest
2026-05-27 · current release · diff ↗
R
R 4.6.0 released · 2026-04-24
5.4.2
2026-02-24 · diff ↗
5.4.1
2026-01-11 · diff ↗
5.3.0
2025-09-27 · diff ↗
5.2.4
2025-06-13 · diff ↗
R
R 4.5.0 released · 2025-04-11
5.2.1
2025-03-18 · diff ↗
5.2.0
2025-01-24 · diff ↗
5.1.0
2024-11-04 · diff ↗
5.0.0
2024-10-02 · diff ↗
4.6.10
2024-08-22 · diff ↗
4.6.9
2024-06-29 · diff ↗
4.6.7
2024-06-05 · diff ↗
R
R 4.4.0 released · 2024-04-24
4.6.6
2024-02-29 · diff ↗

Show 91 earlier events

4.6.5
2024-02-17 · diff ↗
4.6.4
2023-10-18 · diff ↗
4.6.1
2023-07-11 · diff ↗
4.6.0
2023-05-23 · diff ↗
R
R 4.3.0 released · 2023-04-21
4.5.10
2023-03-10 · diff ↗
4.5.8
2022-11-29 · diff ↗
4.5.7
2022-10-08 · diff ↗
4.5.6
2022-08-15 · diff ↗
4.5.5
2022-05-31 · diff ↗
4.5.4
2022-04-22 · diff ↗
R
R 4.2.0 released · 2022-04-22
4.5.3
2022-02-14 · diff ↗
4.5.1
2022-01-18 · diff ↗
4.5.0
2022-01-06 · diff ↗
4.4.8
2021-11-09 · diff ↗
4.4.7
2021-10-18 · diff ↗
4.4.5
2021-07-12 · diff ↗
4.4.4
2021-06-01 · diff ↗
R
R 4.1.0 released · 2021-05-18
4.4.1
2021-04-30 · diff ↗
4.3.3
2020-12-11 · diff ↗
4.3.1
2020-09-01 · diff ↗
4.3.0
2020-07-14 · diff ↗
R
R 4.0.0 released · 2020-04-24
4.2.2
2020-04-09 · diff ↗
4.2.0
2020-02-22 · diff ↗
4.1.0
2019-12-17 · diff ↗
4.0.2
2019-11-11 · diff ↗
3.2.1
2019-06-03 · diff ↗
R
R 3.6.0 released · 2019-04-26
3.2.0
2019-01-25 · diff ↗
3.1.8
2018-11-19 · diff ↗
3.1.7
2018-10-04 · diff ↗
3.1.6
2018-05-14 · diff ↗
R
R 3.5.0 released · 2018-04-23
3.1.5
2018-02-25 · diff ↗
3.1.3
2017-12-03 · diff ↗
3.1.0
2017-09-20 · diff ↗
3.0.1
2017-05-03 · diff ↗
R
R 3.4.0 released · 2017-04-21
2.10.4
2016-12-04 · diff ↗
2.10.3
2016-05-13 · diff ↗
R
R 3.3.0 released · 2016-05-03
2.10.2
2016-01-09 · diff ↗
2.10.0
2015-12-07 · diff ↗
2.9.5
2015-06-16 · diff ↗
R
R 3.2.0 released · 2015-04-16
2.9.4
2015-03-25 · diff ↗
2.9.3
2015-01-11 · diff ↗
2.9.2
2014-11-26 · diff ↗
2.9.1
2014-11-18 · diff ↗
2.9.0
2014-09-22 · diff ↗
2.8.2
2014-04-30 · diff ↗
R
R 3.1.0 released · 2014-04-10
2.8.1
2014-04-03 · diff ↗
2.8.0
2014-03-31 · diff ↗
3.0.3
2013-10-30 · diff ↗
2.7.0
2013-10-30 · diff ↗
3.0.2
2013-06-28 · diff ↗
2.6.1
2013-06-28 · diff ↗
2.6.0
2013-06-12 · diff ↗
R
R 3.0.0 released · 2013-04-03
2.15.3
2013-01-24 · diff ↗
2.5.0
2013-01-23 · diff ↗
2.4.0
2012-11-05 · diff ↗
2.15.1
2012-05-15 · diff ↗
2.3.2
2012-05-15 · diff ↗
R
R 2.15.0 released · 2012-03-30
2.3.1
2011-12-20 · diff ↗
2.14.1
2011-12-16 · diff ↗
2.3.0
2011-11-20 · diff ↗
R
R 2.14.0 released · 2011-10-31
2.2.0
2011-10-02 · diff ↗
2.14.0
2011-10-01 · diff ↗
2.13.1
2011-06-17 · diff ↗
2.1.0
2011-06-17 · diff ↗
R
R 2.13.0 released · 2011-04-13
2.12.2
2011-02-21 · diff ↗
2.0.0
2011-02-21 · diff ↗
1.5.1
2010-12-03 · diff ↗
2.12.1
2010-12-02 · diff ↗
R
R 2.12.0 released · 2010-10-15
1.4.1
2010-08-30 · diff ↗
2.12.0
2010-08-29 · diff ↗
2.11.1
2010-05-07 · diff ↗
1.4.0
2010-05-07 · diff ↗
R
R 2.11.0 released · 2010-04-22
2.11.0
2010-03-11 · diff ↗
1.3.0
2010-03-11
R
R 2.10.0 released · 2009-10-26

Package metadata

First published: 2010-03-11
Total releases: 87 / 16 yrs
License: GPL (>= 2) OSI
Minimum R: ≥ 3.5.0
Bundled data: 126 KB / 11 files
Download size: 1.1 MB
Installed size: not tracked yet
With dependencies: not tracked yet

Appears in task views

Analysis of Ecological and Environmental Data

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("secr")

Format

Efford, M., Choo, Y. R., Fletcher, D., & Jund, P. (2026). secr: Spatially Explicit Capture-Recapture (Version 5.4.3) [Computer software]. https://doi.org/10.32614/CRAN.package.secr

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 secr version 5.4.3 [Data set]. HJJB, LLC. Data release v2026-08-18. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-18, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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