R Observatory: Metrics for ggPMX version 1.3.2

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

ggPMX

1.3.2Package record

'ggplot2' Based Tool to Facilitate Diagnostic Plots for NLME Models

0packages dependsuggested by 2

11.7Kdownloads / year

87.1%test coverage

13/13flavors OK

Overview

About

Maintained by Aleksandr PogodaevCRAN page ↗GitHub ↗Issues ↗

At Novartis, we aimed at standardizing the set of diagnostic plots used for modeling activities in order to reduce the overall effort required for generating such plots. For this, we developed a guidance that proposes an adequate set of diagnostics and a toolbox, called 'ggPMX' to execute them. 'ggPMX' is a toolbox that can generate all diagnostic plots at a quality sufficient for publication and submissions using few lines of code. This package focuses on plots recommended by ISoP doi:10.1002/psp4.12161. While not required, you can get/install the 'R' 'lixoftConnectors' package in the 'Monolix' installation, as described at the following url https://monolixsuite.slp-software.com/r-functions/2024R1/installation-and-initialization. When 'lixoftConnectors' is available, 'R' can use 'Monolix' directly to create the required Chart Data instead of exporting it from the 'Monolix' gui.

Changes in 1.3.2

Fixed bug resulting in missing points upon mergin observations and predictions
Changed labels in individual plots form accepted/ignored to observed/censored (Should be removed in the future)

From NEWS.md in the release

Install

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

install.packages("ggPMX", 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("ggPMXdevelopment/ggPMX")

Development version from ggPMXdevelopment/ggPMX. 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-ggpmx

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-ggPMX

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-ggPMX

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: 23.4 min · r-oldrel-windows-x86_64

Status changes

OK13 OK2026-09-09
ERROR12 OK, 1 ERROR2026-09-04
OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK13 OK2026-06-09

Show 3 earlier changesHide 3 earlier changes

ERROR12 OK, 1 ERROR2026-06-08
OK12 OK2026-04-25
NOTE11 OK, 3 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.3.2

READMEYes · 4,759 wordsVignettesYes · 1 · dynamicNEWSYes · 100% structured · mentions 1.3.2Citation fileNoWebsitenot declared in DESCRIPTION

Help pages: 123 (17 internal)includes a package overview page
Examples that run: 12%4 run in a plain check · 18 only when donttest examples are enabled (R CMD check --as-cran) · 8 never run · 3 hold no code
Exported functions with examples: 44%
Documented parameters: 97%
Return-value docs: 85%
Help pages citing references: 0%

Vignettes (1)

ggPMX - User Guide

How these are measured

Downloads

11.7K

CRAN downloads in the past year

Rank #3,269 · ~32/day · ~972/mo

Releases R versions

Daily download trend is not available in this view yet.

1.7K30 days

3.5K90 days

11.7K1 year

Compare downloads with other packages →

Also on116 r2u7 autocran

How downloads are counted

Repository

ggpmxdevelopment/ggpmx ↗Account: ggPMXdevelopment

41Stars

14Forks

57Open issues

4Open PRs

11Releases

1,773Commits

32Commit identities

rpmxpharmacometricsreporting

1,773 commits · Last activity 2025-09-02 · 0% stars, 30d · The default branch showed an older version (1.3.1) than CRAN on 2026-10-11

Responsiveness

How these are sampled

PRs merged (all time): 89%
Median days to close, 50 most recently updated closed issues: 94
Median days to close, 50 most recently updated closed PRs: 20

Stars over time

2025-01-24 · 392026-08-31 · 41

How these are measured

PracticesBeta

10 development-tooling and community-health practices detected across 7 families in the upstream repository

Checks run against github.com/ggpmxdevelopment/ggpmx on 2026-10-11.

Continuous integration (3)

GitHub ActionsR CMD check workflowTravis CI (config file)

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

Governance and community (1)

Issue templates

Docs source (1)

README.Rmd

Coverage (1)

Coverage reporting

Show all practicesHide 3 practices

Reproducibility and dev environment (1)

Dev Container

CRAN release process (2)

cran-comments.mdCRAN-SUBMISSION

Lint, format, editor (1)

RStudio project

How this is detected·Detection ruleset v3 (2026-09-26)

Dependencies

Declared dependencies

30 external dependencies (excludes base and recommended)

Installing ggPMX adds 73 packages (40 with compiled code, 61 MB of source tarballs). Heaviest: stringi 11 MB, ggplot2 6.0 MB, data.table 5.7 MB.

Depends (1)

R >= 3.5

Imports (20)

data.table yaml R6 gtable ggplot2 ggforce magrittr stringr assertthat GGally zoo knitr rmarkdown tidyr dplyr purrr readr rlang checkmate scales

LinkingTo (0)

none

Suggests (11)

testthat xtable vdiffr rxode2 nlmixr2est nlmixr2datanlmelixoftConnectors xgxr withr lifecycle

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Suggested by 2

Suggests, most downloaded first

nlmixr2 nlmixr2rpt

How these are counted

Code & Tests

People & History

People (19)

Aleksandr Pogodaev

Author, Maintainer since 1.3.0 (2025) · added in 1.3.0

Author

Author

Author

Author

Author

Author · added in 0.9.6

Amine Gassem

Author

Seid Hamzic

Author · added in 1.2.1

Inga Ludwig

Author

Danielle Navarro

Author · added in 1.3.0

Ines Paule

Author

Didier Renard

Author

Mahmoud Ali

Contributor · added in 1.3.0

Kyle T Baron

Contributor · added in 1.2.1

Benjamin Guiastrennec

Contributor · added in 1.2.1

Qing Xi Ooi

Contributor

Ibtissem Rebai

Contributor · added in 1.3.0

Novartis Pharma AG

Copyright holder

Previously maintained by Matthew Fidler (1.1.1 to 1.2.11) and Amine Gassem (0.9.1 to 1.1).

Releases (25)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
1.3.2Latest
record
2025-09-06 · current release · diff ↗
1.3.1
record
2025-08-27 · diff ↗
1.3.0
record
2025-07-16 · diff ↗ ·
added 1 export
pmx_plot_saem_convergence
R
R 4.5.0 released · 2025-04-11
R
R 4.4.0 released · 2024-04-24
1.2.11
record
2023-11-30 · diff ↗ ·
removed 1 export
plot_pmx_gpar_real
1.2.10
record
2023-06-17 · diff ↗
unarchivedReturned to CRAN
2023-06-01
1.2.9
record
2023-06-01 · diff ↗ ·
added 3 exports
check_shrink, plot_pmx_gpar_real, pmx_shrink
archivedRemoved from CRAN
2023-05-31
issues were not corrected in time
R
R 4.3.0 released · 2023-04-21
1.2.8
record
2022-06-18 · diff ↗
1.2.7
record
2022-06-10 · diff ↗ ·
added 9 exports
pmx_plot_abs_iwres_time, pmx_plot_cwres_cpred, pmx_plot_cwres_pred, pmx_plot_cwres_qq, pmx_plot_cwres_time, pmx_plot_npd_epred, pmx_plot_npd_pred, pmx_plot_npd_qq, pmx_plot_npd_time
R
R 4.2.0 released · 2022-04-22
1.2.6
record
2022-02-01 · diff ↗

Show 21 earlier eventsHide 21 earlier events

1.2.5
record
2022-01-15 · diff ↗
1.2.4
record
2021-09-20 · diff ↗
1.2.3
record
2021-05-29 · diff ↗
1.2.2
record
2021-05-28 · diff ↗
1.2.1
record
2021-05-25 · diff ↗ ·
added 3 exports
param_table, pmx_nm, read_extfile
R
R 4.1.0 released · 2021-05-18
1.1.2
record
2020-06-25 · diff ↗
1.1.1
record
2020-05-15 · diff ↗
R
R 4.0.0 released · 2020-04-24
unarchivedReturned to CRAN
2020-04-09
1.1
record
2020-04-09 · diff ↗
archivedRemoved from CRAN
2020-04-03
check problems were not corrected in time Errors in '\donttest' parts of examples
1.0
record
2020-01-12 · diff ↗
0.9.8
record
2019-11-19 · diff ↗
0.9.7
record
2019-11-18 · diff ↗
0.9.6
record
2019-10-27 · diff ↗ ·
added 1 export
pmx_nlmixr
0.9.4
record
2019-06-06 · diff ↗
0.9.3
record
2019-05-26 · diff ↗
0.9.2
record
2019-05-17 · diff ↗
0.9.1
record
2019-05-16
R
R 3.6.0 released · 2019-04-26

Package metadata

First published: 2019-05-16
Total releases: 25 / 7 yrs
License: GPL-2 OSI
Minimum R: ≥ 3.5
Download size: 4.3 MB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("ggPMX")

Format

Pogodaev, A., Novartis Pharma AG, Ali, M., Baltcheva, I., Baron, K. T., Bartels, C., Bhattacharya, S., Bieth, B., Dumortier, T., Fidler, M., Gassem, A., Guiastrennec, B., Hamzic, S., Ludwig, I., Navarro, D., Ooi, Q. X., Paule, I., Rebai, I., & Renard, D. (2025). ggPMX: 'ggplot2' Based Tool to Facilitate Diagnostic Plots for NLME Models (Version 1.3.2) [Computer software]. https://doi.org/10.32614/CRAN.package.ggPMX

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 ggPMX version 1.3.2 [Data set]. HJJB, LLC. Data release v2026-10-19. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-19, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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