R Observatory: Metrics for germinationmetrics version 0.1.10

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

germinationmetrics

0.1.10Package record

Seed Germination Indices and Curve Fitting

0packages depend

9.9Kdownloads / year

39.2%test coverage

13/13flavors OK

Overview

About

Maintained by J. AravindCRAN page ↗GitHub ↗Website ↗Issues ↗

Provides functions to compute various germination indices such as germinability, median germination time, mean germination time, mean germination rate, speed of germination, Timson's index, germination value, coefficient of uniformity of germination, uncertainty of germination process, synchrony of germination etc. from germination count data. Includes functions for fitting cumulative seed germination curves using four-parameter hill function and computation of associated parameters. See the vignette for more, including full list of citations for the methods implemented.

Changes in 0.1.10

OTHER NOTES:

Added internet service checks using curl in vignettes.
Updated to use curl instead of RCurl for url existence checks.
Fixed vnu errors.

From NEWS.md in the release

Install

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

install.packages("germinationmetrics", 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("aravind-j/germinationmetrics")

Development version from aravind-j/germinationmetrics. 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-germinationmetrics

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-germinationmetrics

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-germinationmetrics

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: 5.3 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
OK12 OK2026-04-25

Show 2 earlier changesHide 2 earlier changes

ERROR13 OK, 1 ERROR2026-03-30
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 0.1.10

READMEYes · 457 wordsVignettesYes · 1 · dynamicNEWSYes · 100% structured · mentions 0.1.10Citation fileYes · computed when R runs itWebsiteYes · pkgdown

Help pages: 22 (1 internal)
Examples that run: 75%15 run in a plain check · 5 only when donttest examples are enabled (R CMD check --as-cran)
Exported functions with examples: 89%
Documented parameters: 100%
Return-value docs: 95%
Help pages citing references: 77% with a bibliography file

Vignettes (1)

Introduction

How these are measured

Downloads

9.9K

CRAN downloads in the past year

Rank #4,722 · ~27/day · ~828/mo

Releases R versions

Daily download trend is not available in this view yet.

65730 days

1.8K90 days

9.9K1 year

Compare downloads with other packages →

Also on95 r2u3 autocran

How downloads are counted

Repository

aravind-j/germinationmetrics ↗Account: aravind-j

5Stars

1Forks

3Open issues

1Open PRs

11Releases

359Commits

2Commit identities

rseed-germination-indicesseedgerminationseed-germination-curvegermination-indicescurve-fitting

359 commits · Last activity 2026-04-29 · +25% stars, 30d · Default branch at 0.1.10.9000, ahead of CRAN 0.1.10 (checked 2026-10-21)

Responsiveness

How these are sampled

PRs merged (all time): not measured
Median days to close, 50 most recently updated closed issues: 8
Median days to close, 50 most recently updated closed PRs: not measured

Stars over time

2025-10-01 · 42026-10-12 · 5

How these are measured

PracticesBeta

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

Checks run against github.com/aravind-j/germinationmetrics on 2026-10-21.

Continuous integration (2)

GitHub ActionsR CMD check workflow

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

Docs source (4)

README.Rmdpkgdown

GitHub Pages site last deployed 2026-04-29 · The repository has a site deploy workflow

pkgdown site last built 2026-04-29

CRAN release process (1)

cran-comments.md

Research and citation (2)

CITATION.cffcodemeta.json

Show all practicesHide 1 practice

Lint, format, editor (1)

RStudio project

How this is detected·Detection ruleset v4 (2026-10-20)

Dependencies

Declared dependencies

19 external dependencies (excludes base and recommended)

Installing germinationmetrics adds 39 packages (22 with compiled code, 41 MB of source tarballs). Heaviest: stringi 11 MB, ggplot2 6.0 MB, data.table 5.7 MB.

Depends (1)

R >= 3.5.0

Imports (14)

broom cli data.table dplyr ggplot2 ggrepel gslnls mathjaxrmethodsplyr Rdpack rlangstatsutils

LinkingTo (0)

none

Suggests (8)

httr knitr pander curl reshape2 rmarkdown testthat (>= 3.0.0)XML

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

How these are counted

Code & Tests

Datasets

People & History

People (6)

J. Aravind

Author, Maintainer since 0.1.0 (2018)

Author

Author

Author

Author

Copyright holder

https://nbpgr.org.in/

Listed in earlier versions (1)

Jacob

no longer listed · 0.1.2 to 0.1.10

Releases (12)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
0.1.10Latest
record
2026-04-21 · current release · diff ↗
0.1.9
record
2025-12-14 · diff ↗ ·
added 5 exports
GeomLine2, GeomPath2, draw_key_path2, geom_line2, geom_path2
R
R 4.5.0 released · 2025-04-11
R
R 4.4.0 released · 2024-04-24
0.1.8
record
2023-08-18 · diff ↗ ·
added 5 exports
FourPHF, FourPHF_fixa, FourPHF_fixa_fixy0, FourPHF_fixy0, RateofGerm
R
R 4.3.0 released · 2023-04-21
0.1.7
record
2022-08-28 · diff ↗
unarchivedReturned to CRAN
2022-06-15
0.1.6
record
2022-06-15 · diff ↗ ·
added 1 export
PeakGermPercent
archivedRemoved from CRAN
2022-06-05
policy violation On Internet access to cran.r-project.org Does not respect user's choice of mirror
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
unarchivedReturned to CRAN
2021-02-17
0.1.5
record
2021-02-17 · diff ↗
archivedRemoved from CRAN
2021-01-21
check problems were not corrected in time

Show 14 earlier eventsHide 14 earlier events

0.1.4
record
2020-06-16 · diff ↗ ·
added 3 exports
EmergenceRateIndex, FourPHFfit.bulk, GermIndex
R
R 4.0.0 released · 2020-04-24
R
R 3.6.0 released · 2019-04-26
unarchivedReturned to CRAN
2019-01-19
0.1.3
record
2019-01-19 · diff ↗ ·
removed 1 export
CVSEGermTime

added 3 exports
CVGermTime, WeightGermPercent, germination.indices
archivedRemoved from CRAN
2019-01-11
check issues were not corrected after 2 months, suggested fix and a reminder
unarchivedReturned to CRAN
2018-10-31
fancyvrb and xcolor
0.1.2
record
2018-10-31 · diff ↗
orphanedOrphaned by its maintainer
2018-10-16
check errors were not corrected despite suggestion and reminder
0.1.1.1
record
2018-10-16 · diff ↗
0.1.1
record
2018-07-26 · diff ↗
R
R 3.5.0 released · 2018-04-23
0.1.0
record
2018-04-17
R
R 3.4.0 released · 2017-04-21

Package metadata

First published: 2018-04-17
Total releases: 12 / 8 yrs
License: GPL-2 | GPL-3 OSI
Minimum R: ≥ 3.5.0
Bundled data: 0.4 KB / 1 file
Download size: 1.0 MB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("germinationmetrics")

The package provides a citation file that builds its entry when R runs it. Run citation() to see it.

The repository also keeps a CITATION.cff.

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 germinationmetrics version 0.1.10 [Data set]. HJJB, LLC. Data release v2026-10-23. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-23, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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