ssdtools

2.6.0

Species Sensitivity Distributions

2packages depend

10.9Kdownloads / year

86.2%test coverage

8/13checks pass

Overview

About

Maintained by Joe ThorleyFirst published 2018-10-1427 releasesCRAN page ↗GitHub ↗

Species sensitivity distributions are cumulative probability distributions which are fitted to toxicity concentrations for different species as described by Posthuma et al.(2001) <isbn:9781566705783>. The ssdtools package uses Maximum Likelihood to fit distributions such as the gamma, log-logistic, log-normal and log-normal log-normal mixture. Multiple distributions can be averaged using Akaike Information Criteria. Confidence intervals on hazard concentrations and proportions are produced by bootstrapping.

Install

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

install.packages("ssdtools", 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("bcgov/ssdtools")

Development version from bcgov/ssdtools. 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-ssdtools

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-ssdtools

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-ssdtools

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

Health

CRAN checks

5NOTE8OK

Failing flavors

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

Slowest check: 13.7 min · r-devel-linux-x86_64-fedora-clang

Code health

Yes

Tests · ratio 1.01

86.2%

Coverage · measured lines

100%

Documentation · exports

Dependencies · direct

Check history

NOTE2026-07-16
11 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
OK2026-06-08
12 OK · 0 NOTE · 0 WARNING · 0 ERROR · 1 FAILURE
WARNING2026-06-07
12 OK · 0 NOTE · 1 WARNING · 0 ERROR · 0 FAILURE
OK2026-04-25
12 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
NOTE2026-04-22
11 OK · 3 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Show 2 earlier snapshots

ERROR2026-04-18
10 OK · 3 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
NOTE2026-03-10
11 OK · 3 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 591 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: 91%
Documented parameters: 99%
Return-value docs: 59%
References docs: 1%

Downloads

10.9K

CRAN downloads in the past year

Rank #3,833 · ~30/day · ~905/mo

Releases R versions

Daily download trend is not available in this view yet.

68130 days

2.7K90 days

10.9K1 year

Compare downloads with other packages →

Also on705 r2u32 autocran

Repository

GitHub ↗ bcgov/ssdtools

38Stars

20Forks

29Open issues

0Open PRs

13Releases

2,462Commits

19Contributors

rstatsecotoxicologyspecies-sensitivity-distributionenv

License Apache-2.0 · 2,462 commits · Last activity 2026-07-13 · +2.7% stars, 30d

Stars over time

2025-03-05 · 332026-07-07 · 38

Repository practices

Upstream repositoryBeta

13 development-tooling and community-health practices detected across 8 families in the upstream repository

Checks run against github.com/bcgov/ssdtools on 2026-07-19.

Continuous integration (1)

GitHub Actions

Reproducibility and dev environment (1)

data-raw/

CRAN release process (3)

cran-comments.mdrevdep/CRAN-SUBMISSION

Docs source (1)

README.Rmd

Show all practices

Research and citation (1)

CITATION.cff

Lint, format, editor (2)

AirRStudio project

Coverage (2)

Codecov.covrignore

Governance and community (2)

CODEOWNERSSupport guide

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

Dependencies

Declared dependencies

42 external dependencies (excludes base and recommended)

Depends (1)

R >= 4.1

Imports (25)

abind chk furrr generics ggplot2 ggtext glue goftestgraphicsgridlifecycleparallelplyr purrr Rcpp readr rlang scales ssddatastatsstringr tibble TMB universalsutils

LinkingTo (3)

Rcpp RcppEigen TMB

Suggests (20)

actuar covr dplyr EnvStats extraDistr fitdistrplusgrDevicesknitr latex2exp magrittr mle.tools patchwork reshape2 rmarkdown testthat tidyr tidyselect tinytex VGAM withr

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

2direct

0indirect

GenHMM1d serocalculator

Code & Tests

Datasets

People & History

People (26)

Maintainer (1)

Joe Thorley

Author, Maintainer

Authors (4)

Joe Thorley

Author, Maintainer

Rebecca Fisher

Author · added in 0.1.0

David Fox

Author · added in 0.1.0

Carl Schwarz

Author

Contributors (19)

Ali Azizishirazi

Contributor

Graham Batley

Contributor · added in 1.0.4

Florencia D'Andrea

Contributor · added in 2.2.0

Seb Dalgarno

Contributor · added in 1.0.2

Emilie Doussantousse

Contributor · added in 0.0.3

Stephanie Hazlitt

Contributor

Nan-Hung Hsieh

Contributor · added in 0.1.0

Nadine Hussein

Contributor · added in 0.3.3

Show 11 more contributors

Sergio Ibarra Espinosa

Contributor · added in 0.1.0

Duncan Kennedy

Contributor · added in 2.2.0

Sarah Lyons

Contributor · added in 2.0.0

Kathleen McTavish

Contributor · added in 0.0.3

Doug Spry

Contributor · added in 1.0.4

Eduard Szöcs

Contributor · added in 2.4.0

Andy Teucher

Contributor · added in 0.0.3

Heather Thompson

Contributor · added in 0.0.3

Angeline Tillmanns

Contributor

Hadley Wickham

Contributor · added in 2.0.0

Rick van Dam

Contributor · added in 1.0.4

Australian Government Department of Climate Change, Energy, the Environment and Water

Funder, Copyright holder · added in 2.0.0

Environment and Climate Change Canada

Funder, Copyright holder · added in 1.0.0

Province of British Columbia

Funder, Copyright holder

Funders (3)

Australian Government Department of Climate Change, Energy, the Environment and Water

Funder, Copyright holder · added in 2.0.0

Environment and Climate Change Canada

Funder, Copyright holder · added in 1.0.0

Province of British Columbia

Funder, Copyright holder

Listed in earlier versions (1)

Tony Bigwood

no longer listed · 2.0.0 to 2.1.0

Package Timeline

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

R
R 4.6.0 released · 2026-04-24
2.6.0Latest
2026-03-05 · current release · diff ↗
2.5.0
2025-12-01 · diff ↗
2.4.0
2025-09-12 · diff ↗
R
R 4.5.0 released · 2025-04-11
2.3.0
2025-02-20 · diff ↗
2.2.0
2025-01-14 · diff ↗
2.1.0
2024-10-21 · diff ↗
2.0.0
2024-10-09 · diff ↗
R
R 4.4.0 released · 2024-04-24
1.0.6
2023-09-07 · diff ↗
1.0.5
2023-08-29 · diff ↗
1.0.4
2023-05-17 · diff ↗
R
R 4.3.0 released · 2023-04-21
1.0.3
2023-04-12 · diff ↗
1.0.2
2022-05-15 · diff ↗

Show 20 earlier events

R
R 4.2.0 released · 2022-04-22
1.0.1
2022-04-10 · diff ↗
1.0.0
2022-04-01 · diff ↗
0.3.7
2021-10-27 · diff ↗
0.3.6
2021-09-22 · diff ↗
0.3.5
2021-09-03 · diff ↗
R
R 4.1.0 released · 2021-05-18
0.3.4
2021-05-14 · diff ↗
0.3.3
2021-02-19 · diff ↗
0.3.2
2020-09-02 · diff ↗
0.3.1
2020-09-01 · diff ↗
0.3.0
2020-07-10 · diff ↗
R
R 4.0.0 released · 2020-04-24
0.2.0
2020-04-15 · diff ↗
0.1.1
2020-01-24 · diff ↗
0.1.0
2020-01-13 · diff ↗
R
R 3.6.0 released · 2019-04-26
0.0.3
2018-11-25 · diff ↗
0.0.2
2018-10-14
R
R 3.5.0 released · 2018-04-23

Package metadata

First published: 2018-10-14
Total releases: 27 / 8 yrs
License: Apache License (== 2.0) | file LICENSE
Minimum R: ≥ 4.1
Bundled data: 4.8 KB / 2 files
Download size: 1.8 MB
Installed size: not tracked yet
With dependencies: not tracked yet

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