R Observatory: Metrics for GenoTriplo version 2.2.2

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

GenoTriplo

2.2.2Package record

Genotyping Triploids/Tetraploids (or Diploids) from Luminescence Data

0packages depend

2.8Kdownloads / year

–test coverage

13/13flavors OK

Overview

About

Maintained by Julien RocheCRAN page ↗

Genotyping of triploid individuals from luminescence data (marker probeset A and B). Works also for diploids and tetraploids. Three main functions: Create_Dataset_from_file() to build dataset ; Clustering_parallele_from_dir() that regroups individuals with a same genotype based on proximity and Genotyping_parallele_from_dir() that assigns a genotype to each cluster. For Shiny interface use: launch_GenoShiny().

Install

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

install.packages("GenoTriplo", 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-genotriplo

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-GenoTriplo

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-GenoTriplo

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: 4.1 min · r-release-macos-x86_64

Status changes

OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 2.2.2

READMENoVignettesNoNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 9
Examples that run: 0%9 never run
Exported functions with examples: 100%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 0%

How these are measured

Downloads

2.8K

CRAN downloads in the past year

Rank #10,353 · ~8/day · ~231/mo

Releases R versions

Daily download trend is not available in this view yet.

39930 days

99790 days

2.8K1 year

Compare downloads with other packages →

Also on75 r2u7 autocran

How downloads are counted

Dependencies

Declared dependencies

17 external dependencies (excludes base and recommended)

Installing GenoTriplo adds 73 packages (36 with compiled code, 68 MB of source tarballs). Heaviest: stringi 11 MB, ggplot2 6.0 MB, data.table 5.7 MB.

Depends (2)

R >= 3.5.0shinyBS

Imports (17)

cowplot doParallel dplyr DT foreach ggplot2 htmltoolsparallelprocessx rlang Rmixmod shiny shinythemes data.table shinyFiles bslib stringr

LinkingTo (0)

none

Suggests (0)

none

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 (7)

Julien Roche

Author, Maintainer since 1.0.1 (2023)

Author

Author

Author

Author

Author

Author

Releases (9)

Pick two releases to compare their code metrics.

2.2.2Latest
record
2026-10-13 · current release · diff ↗
2.2.1
record
2026-07-28 · diff ↗ ·
removed 3 exports
Create_Dataset, Run_Clustering, Run_Genotyping

added 7 exports
Clustering_from_dir, Clustering_from_file, Clustering_parallele_from_dir, Create_Dataset_from_file, Genotyping_from_file, Genotyping_parallele_from_dir, create_genofiles
R
R 4.6.0 released · 2026-04-24
R
R 4.5.0 released · 2025-04-11
1.1.3
record
2025-03-25 · diff ↗
1.1.2
record
2024-12-04 · diff ↗
1.1.0
record
2024-07-31 · diff ↗
R
R 4.4.0 released · 2024-04-24
1.0.4
record
2024-02-28 · diff ↗
1.0.3
record
2023-10-03 · diff ↗
1.0.2
record
2023-09-06 · diff ↗ ·
added 1 export
Create_Dataset
1.0.1
record
2023-06-30
R
R 4.3.0 released · 2023-04-21

Package metadata

First published: 2023-06-30
Total releases: 9 / 3 yrs
License: GPL
Minimum R: ≥ 3.5.0
Download size: 231 KB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("GenoTriplo")

Format

Roche, J., Allal, F., Besson, M., Haffray, P., Patrice, P., Phocas, F., & Vandeputte, M. (2026). GenoTriplo: Genotyping Triploids/Tetraploids (or Diploids) from Luminescence Data (Version 2.2.2) [Computer software]. https://doi.org/10.32614/CRAN.package.GenoTriplo

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 GenoTriplo version 2.2.2 [Data set]. HJJB, LLC. Data release v2026-10-24. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-24, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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