R Observatory: Metrics for ctsmTMB version 1.1.1

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

ctsmTMB

1.1.1

Continuous Time Stochastic Modelling using Template Model Builder

0packages depend

2.6Kdownloads / year

65.2%test coverage

13/13checks pass

Overview

About

Maintained by Phillip VetterFirst published 2025-04-083 releasesCRAN page ↗GitHub ↗

Perform state and parameter inference, and forecasting, in stochastic state-space systems using the 'ctsmTMB' R6 class. This class provides a user-friendly interface for working with stochastic state space models. Inference is based on maximum likelihood estimation, with derivatives efficiently computed through automatic differentiation enabled by the 'TMB'/'RTMB' packages (Kristensen et al., 2016) doi:10.18637/jss.v070.i05. The available inference methods include Kalman filters, in addition to a Laplace approximation-based smoothing method. For further details of these methods refer to the documentation of the 'CTSMR' package https://ctsm.info/ctsmr-reference.pdf and Thygesen (2025) doi:10.48550/arXiv.2503.21358. Forecasting capabilities include moment predictions and stochastic path simulations implemented in 'C++' using 'Rcpp' (Eddelbuettel et al., 2018) doi:10.1080/00031305.2017.1375990 for computational efficiency.

Install

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

install.packages("ctsmTMB", 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("phillipbvetter/ctsmTMB")

Development version from phillipbvetter/ctsmTMB. 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-ctsmtmb

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-ctsmTMB

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-ctsmTMB

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

Health

CRAN checks

13OK

Slowest check: 10.0 min · r-oldrel-windows-x86_64

Code health

Yes

Tests · ratio 0.07

65.2%

Coverage · measured lines

100%

Documentation · exports

14

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
OK2026-07-22
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-04-25
11 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
NOTE2026-04-22
12 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Show 2 earlier snapshots

ERROR2026-04-18
11 OK · 2 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
NOTE2026-03-10
12 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 998 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: 0%
Documented parameters: not tracked
Return-value docs: 100%
References docs: 0%

Downloads

2.6K

CRAN downloads in the past year

Rank #11,718 · ~7/day · ~220/mo

Releases R versions

Daily download trend is not available in this view yet.

33730 days

84390 days

2.6K1 year

Compare downloads with other packages →

Also on433 r2u18 autocran

Repository

GitHub ↗ phillipbvetter/ctsmtmb

6Stars

3Forks

0Open issues

0Open PRs

0Releases

230Commits

4Contributors

230 commits · Last activity 2026-08-07 · 0% stars, 30d

Stars over time

2025-06-02 · 32026-07-07 · 6

Repository practices

Upstream repositoryBeta

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

Checks run against github.com/phillipbvetter/ctsmtmb on 2026-08-16.

Continuous integration (1)

GitHub Actions

Reproducibility and dev environment (1)

data-raw/

CRAN release process (1)

cran-comments.md

Docs source (1)

README.Rmd

Show all practices

Lint, format, editor (1)

RStudio project

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

Development tooling

AI-assisted toolingBeta

Uses AI-assisted development tooling (declared in repo)

Earliest detected marker: claude on 2026-03-23

claude

Most recent: claude on 2026-03-23

Evidence

claude: on 2026-03-23 · evidence B, D

How this is detected·Detection ruleset v2 (updated 2026-07-29)

Dependencies

Declared dependencies

16 external dependencies (excludes base and recommended)

Depends (1)

R >= 4.0.0

Imports (14)

Deriv ggplot2graphicsgrDevicesMatrixpatchwork R6 Rcpp rlang RTMBstatsstringr TMButils

LinkingTo (4)

Rcpp RcppArmadillo RcppEigen zigg

Suggests (3)

knitr rmarkdown testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (5)

Maintainer (1)

Phillip Vetter

Author, Maintainer, Copyright holder

Authors (1)

Phillip Vetter

Author, Maintainer, Copyright holder

Contributors (4)

Contributor

Contributor

Contributor

Contributor

Copyright holders (1)

Phillip Vetter

Author, Maintainer, Copyright holder

Package Timeline

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

1.1.1Latest
2026-07-15 · current release · diff ↗
R
R 4.6.0 released · 2026-04-24
1.0.1
2025-08-28 · diff ↗
R
R 4.5.0 released · 2025-04-11
1.0.0
2025-04-08
R
R 4.4.0 released · 2024-04-24

Package metadata

First published: 2025-04-08
Total releases: 3 / 1 yrs
License: GPL-3 OSI
Minimum R: ≥ 4.0.0
Bundled data: 497 KB / 4 files
Download size: 1.9 MB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("ctsmTMB")

Format

Vetter, P., Bacher, P., Madsen, H., Møller, J., & Thygesen, U. (2026). ctsmTMB: Continuous Time Stochastic Modelling using Template Model Builder (Version 1.1.1) [Computer software]. https://doi.org/10.32614/CRAN.package.ctsmTMB

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 ctsmTMB version 1.1.1 [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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