R Observatory: Metrics for stockR version 1.0.76

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

stockR

1.0.76Package record

Identifying Stocks in Genetic Data

0packages depend

2.3Kdownloads / year

–test coverage

11/13flavors OK

Overview

About

Maintained by Scott D. FosterCRAN page ↗

Provides a mixture model for clustering individuals (or sampling groups) into stocks based on their genetic profile. Here, sampling groups are individuals that are sure to come from the same stock (e.g. breeding adults or larvae). The mixture (log-)likelihood is maximised using the EM-algorithm after finding good starting values via a K-means clustering of the genetic data. Details can be found in: Foster, S. D.; Feutry, P.; Grewe, P. M.; Berry, O.; Hui, F. K. C. & Davies (2020) doi:10.1111/1755-0998.12920.

Install

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

install.packages("stockR", repos = "https://cloud.r-project.org/")

Installs the current CRAN release. Prebuilt binaries on Windows and macOS.

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-stockr

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-stockR

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-stockR

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

2NOTE11OK

Check messages

NOTERd contentsr-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc

Rd files without \usage:
  ‘plot.stockBOOT.Rd’
\arguments should not be documented without \usage.

CRAN check page ↗

Slowest check: 5.6 min · r-devel-windows-x86_64

Status changes

NOTE11 OK, 2 NOTENow
NOTE12 OK, 1 NOTE2026-07-11
OK13 OK2026-06-27
WARNING12 OK, 1 WARNING2026-06-14
OK13 OK2026-06-09
ERROR12 OK, 1 ERROR2026-06-08

Show 3 earlier changesHide 3 earlier changes

OK13 OK2026-04-29
WARNING12 OK, 1 WARNING2026-04-28
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.0.76

READMENoVignettesYes · 1 · dynamicNEWSYes · 33% structuredCitation fileYes · cites a publicationWebsitenot declared in DESCRIPTION

Help pages: 5
Examples that run: 40%2 run in a plain check · 3 only when donttest examples are enabled (R CMD check --as-cran)
Exported functions with examples: 100%
Documented parameters: 86%
Return-value docs: 100%
Help pages citing references: 60%

Vignettes (1)

stockR Introduction PDF

How these are measured

Downloads

2.3K

CRAN downloads in the past year

Rank #20,965 · ~6/day · ~194/mo

Releases R versions

Daily download trend is not available in this view yet.

22530 days

63990 days

2.3K1 year

Compare downloads with other packages →

Also on354 r2u7 autocran

How downloads are counted

Dependencies

Declared dependencies

5 external dependencies (excludes base and recommended)

Installing stockR adds 3 packages (2 with compiled code, 2.0 MB of source tarballs). Heaviest: Rcpp 1.8 MB, gtools 236 KB, RColorBrewer 11 KB.

Depends (1)

R >= 2.10

Imports (6)

RcppstatsgtoolsparallelRColorBrewermethods

LinkingTo (1)

Rcpp

Suggests (1)

knitr

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

How these are counted

Code & Tests

People & History

People (1)

Scott D. Foster

Author, Maintainer since 1.0.68 (2018)

Releases (4)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
R
R 4.5.0 released · 2025-04-11
R
R 4.4.0 released · 2024-04-24
unarchivedReturned to CRAN
2023-04-26
1.0.76Latest
record
2023-04-26 · current release · diff ↗
R
R 4.3.0 released · 2023-04-21
archivedRemoved from CRAN
2023-04-07
issues were not corrected in time
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
R
R 4.0.0 released · 2020-04-24
1.0.74
record
2020-03-04 · diff ↗
1.0.73
record
2020-02-06 · diff ↗ ·
added 1 export
plot.stockBOOT.object
R
R 3.6.0 released · 2019-04-26
1.0.68
record
2018-06-14
R
R 3.5.0 released · 2018-04-23

Package metadata

First published: 2018-06-14
Total releases: 4 / 8 yrs
License: GPL (>= 2) OSI
Minimum R: ≥ 2.10
Download size: 464 KB

Cite

Cite this package

Run in R for the authors' entry:

citation("stockR")

The package provides a citation file, so citation() returns the authors' own entry.

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 stockR version 1.0.76 [Data set]. HJJB, LLC. Data release v2026-10-25. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-25, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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