toxSummary

1.0.0

Visualize and Summarize Repeat-Dose Toxicology Study Results

0packages depend

2.3Kdownloads / year

–test coverage

12/13checks pass

Overview

About

Maintained by Yousuf AliFirst published 2024-02-271 releasesCRAN page ↗GitHub ↗

A 'shiny' app that generates plots and summary tables from repeat-dose toxicology study results to facilitate holistic evaluation of the drug safety of active pharmaceutical ingredients (API) prior to initiation of clinical trials.

Install

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

install.packages("toxSummary", 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("phuse-org/toxSummary")

Development version from phuse-org/toxSummary. 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-toxsummary

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-toxSummary

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-toxSummary

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

Health

CRAN checks

1NOTE12OK

Failing flavors

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

Slowest check: 2.2 min · r-devel-linux-x86_64-fedora-clang

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

Dependencies · direct

Check history

NOTE2026-08-01
12 OK · 1 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
OK2026-06-09
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-06-08
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 750 wordsVignettesYes · dynamicpkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 100%
Return-value docs: 100%
References docs: 0%

Downloads

2.3K

CRAN downloads in the past year

Rank #18,151 · ~6/day · ~194/mo

Releases R versions

Daily download trend is not available in this view yet.

20430 days

60590 days

2.3K1 year

Compare downloads with other packages →

Also on104 r2u

Repository

GitHub ↗ phuse-org/toxsummary

9Stars

5Forks

4Open issues

1Open PRs

0Releases

426Commits

5Contributors

r-shiny-apptoxicologyvisualizationcdisc-send

426 commits · Last activity 2024-09-26

Stars over time

2024-11-11 · 82026-07-07 · 9

Repository practices

Upstream repositoryBeta

5 development-tooling and community-health practices detected across 3 families in the upstream repository

Checks run against github.com/phuse-org/toxsummary on 2026-07-31.

Continuous integration (1)

GitHub Actions

Reproducibility and dev environment (2)

data-raw/Dev Container

Lint, format, editor (2)

lintrVS Code

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

Dependencies

Declared dependencies

22 external dependencies (excludes base and recommended)

Depends (1)

R >= 2.10

Imports (19)

cicerone data.table DBI dplyr DT flextable fs ggiraph ggplot2 htmltools magrittr patchwork rlang RSQLite scales shiny shinycssloaders shinydisconnect stringr

LinkingTo (0)

none

Suggests (3)

knitr officer rmarkdown

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

People & History

People (3)

Maintainer (1)

Yousuf Ali

Maintainer, Author

Authors (2)

Yousuf Ali

Maintainer, Author

Kevin Snyder

Author

FDA

Package Timeline

1 release. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
1.0.0Latest
2026-03-10 · current release
R
R 4.5.0 released · 2025-04-11

Package metadata

First published: 2024-02-27
Total releases: 1 / 2 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 2.10
Download size: 3.2 MB
Installed size: not tracked yet
With dependencies: not tracked yet

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