R Observatory: Metrics for pcvr version 1.4.1

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

pcvr

1.4.1Package record

Plant Phenotyping and Bayesian Statistics

0packages depend

5.9Kdownloads / year

80.7%test coverage

13/13flavors OK

Overview

About

Maintained by Josh SumnerCRAN page ↗GitHub ↗Website ↗Issues ↗

Analyse common types of plant phenotyping data, provide a simplified interface to longitudinal growth modeling and select Bayesian statistics, and streamline use of 'PlantCV' output. Several Bayesian methods and reporting guidelines for Bayesian methods are described in Kruschke (2018) doi:10.1177/2515245918771304, Kruschke (2013) doi:10.1037/a0029146, and Kruschke (2021) doi:10.1038/s41562-021-01177-7.

Install

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

install.packages("pcvr", 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("danforthcenter/pcvr")

Development version from danforthcenter/pcvr. 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-pcvr

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-pcvr

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-pcvr

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: 14.1 min · r-oldrel-windows-x86_64

Status changes

OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK13 OK2026-06-09
ERROR12 OK, 1 ERROR2026-06-08
OK13 OK2026-05-02

Show 2 earlier changesHide 2 earlier changes

ERROR11 OK, 1 ERROR2026-04-25
NOTE11 OK, 3 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

Documentation signals are not tracked yet for this package.

WebsiteYes · pkgdown

Vignettes (3)

How these are measured

Downloads

5.9K

CRAN downloads in the past year

Rank #9,301 · ~16/day · ~491/mo

pcvr Releases R versions

Daily download trend is not available in this view yet.

42130 days

1K90 days

5.9K1 year

Compare downloads with other packages →

Also on102 r2u6 autocran

How downloads are counted

Repository

danforthcenter/pcvr ↗Organization: danforthcenter

5Stars

0Forks

0Open issues

1Open PRs

0Releases

1,703Commits

1Commit identities

1,703 commits · Last activity 2026-08-31

Responsiveness

How these are sampled

PRs merged (all time): 99%
Median days to close, 50 most recently updated closed issues: not measured
Median days to close, 50 most recently updated closed PRs: 0

How these are measured

PracticesBeta

10 development-tooling and community-health practices detected across 6 families in the upstream repository

Checks run against github.com/danforthcenter/pcvr on 2026-10-11.

Continuous integration (2)

GitHub ActionsR CMD check workflow

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

Governance and community (1)

Issue templates

Docs source (3)

pkgdown

GitHub Pages site last deployed 2026-08-31 · The repository has a site deploy workflow

pkgdown site last built 2026-08-31

Coverage (1)

Coverage reporting

Show all practicesHide 2 practices

CRAN release process (2)

cran-comments.mdCRAN-SUBMISSION

Lint, format, editor (1)

Lint workflow

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

Dependencies

Declared dependencies

27 external dependencies (excludes base and recommended)

Installing pcvr adds 113 packages (57 with compiled code, 109 MB of source tarballs). Heaviest: stringi 11 MB, ggplot2 6.0 MB, data.table 5.7 MB.

Depends (1)

R >= 3.5.0

Imports (24)

FactoMineR rlangstatsutilsmethodsdata.table ggplot2 ggridges igraph jsonlite lme4 patchwork extraDistrparallelbayestestR viridismgcvquantregnlmesplineslmeSplines scalessurvivalcar

LinkingTo (0)

none

Suggests (11)

knitr rmarkdown brms flexsurv curl cmdstanr rstan caret vctrs plyr testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

How these are counted

Code & Tests

People & History

People (4)

Josh Sumner

Author, Maintainer since 1.0.0 (2024)

Jeffrey Berry

Author

Donald Danforth Plant Science Center

Copyright holder

Noah Fahlgren

Reviewer

Releases (5)

1.4.1Latest
record
2026-06-23 · current release · diff ↗ ·
added 6 exports
stat_brms_model, stat_growthss, stat_lme_model, stat_nlme_model, stat_nlrq_model, stat_nls_model
R
R 4.6.0 released · 2026-04-24
1.3.1
record
2025-08-18 · diff ↗ ·
removed 3 exports
bw.outliers, bw.time, bw.water

added 3 exports
pcv.outliers, pcv.time, pcv.water
1.2.0
record
2025-04-16 · diff ↗
R
R 4.5.0 released · 2025-04-11
1.1.1.0
record
2024-11-06 · diff ↗ ·
added 4 exports
fitGrowthbrmsgam, fitGrowthlm, fitGrowthrq, mvSS
1.0.0
record
2024-09-05
R
R 4.4.0 released · 2024-04-24

Package metadata

First published: 2024-09-05
Total releases: 5 / 2 yrs
License: GPL-2 OSI
Download size: 2.8 MB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("pcvr")

Format

Sumner, J., Donald Danforth Plant Science Center, Berry, J., & Fahlgren, N. (2026). pcvr: Plant Phenotyping and Bayesian Statistics (Version 1.4.1) [Computer software]. https://doi.org/10.32614/CRAN.package.pcvr

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 pcvr version 1.4.1 [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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