R Observatory: Metrics for xegaSelectGene version 1.0.0.4

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

xegaSelectGene

1.0.0.4

Selection of Genes and Gene Representation Independent Functions

8packages depend

4.3Kdownloads / year

73.9%test coverage

13/13flavors OK

Overview

About

Maintained by Andreas Geyer-SchulzCRAN page ↗GitHub ↗

This collection of gene representation-independent mechanisms for evolutionary and genetic algorithms for the R-package xega https://CRAN.R-project.org/package=xega contains four groups of functions: First, functions for selecting a gene in a population of genes according to its fitness value and for adaptive scaling of the fitness values as well as for performance optimization and measurement offer several variants for implementing the survival of the fittest. Second, evaluation functions for deterministic functions avoid recomputation. Evaluation of stochastic functions incrementally improve the estimation of the mean and variance of fitness values at almost no additional cost. Evaluation functions for gene repair handle error-correcting decoders. Third, timing and counting functions for profiling the algorithm pipeline are provided to assess bottlenecks in the algorithms. Fourth, a small collection of problem environments for function optimization, combinatorial optimization, and grammar-based genetic programming and grammatical evolution is provided for tutorial examples. For xega's architecture, see Geyer-Schulz, A. (2025) doi:10.5445/IR/1000187255. The methods in the package are described by the following references: Baker, James E. (1987, ISBN:978-08058-0158-8), De Jong, Kenneth A. (1975) https://deepblue.lib.umich.edu/handle/2027.42/4507, Geyer-Schulz, Andreas (1997, ISBN:978-3-7908-0830-X), Grefenstette, John J. (1987, ISBN:978-08058-0158-8), Grefenstette, John J. and Baker, James E. (1989, ISBN:1-55860-066-3), Holland, John (1975, ISBN:0-472-08460-7), Lau, H. T. (1986) doi:10.1007/978-3-642-61649-5, Price, Kenneth V., Storn, Rainer M. and Lampinen, Jouni A. (2005) doi:10.1007/3-540-31306-0, Reynolds, J. C. (1993) doi:10.1007/BF01019459, Schaffer, J. David (1989, ISBN:1-55860-066-3), Wenstop, Fred (1980) doi:10.1016/0165-0114(80)90031-7, Whitley, Darrell (1989, ISBN:1-55860-066-3), Wickham, Hadley (2019, ISBN:978-815384571).

Changes in 1.0.0.4

SelectTopK: Deterministic. Best (Worst) K genes.
NewlFSeclectGenes: TopK() added for SelectTopK.

From NEWS in the release

Install

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

install.packages("xegaSelectGene", 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("ageyerschulz/xegaSelectGene")

Development version from ageyerschulz/xegaSelectGene. 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-xegaselectgene

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-xegaSelectGene

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-xegaSelectGene

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: 2.2 min · r-oldrel-windows-x86_64

Status changes

OK13 OK2026-08-04
NOTE12 OK, 1 NOTE2026-08-01
OK13 OK2026-06-09
WARNING12 OK, 1 WARNING2026-06-08
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.0.0.4

READMEYes · 242 wordsVignettesNoNEWSYes · 67% structured · mentions 1.0.0.4Citation fileNoWebsitenot declared in DESCRIPTION

Help pages: 55includes a package overview page
Examples that run: 100%52 run in a plain check
Exported functions with examples: 96%
Documented parameters: 100%
Return-value docs: 96%
Help pages citing references: 27%

How these are measured

Downloads

4.3K

CRAN downloads in the past year

Rank #20,732 · ~12/day · ~362/mo

Releases R versions

Daily download trend is not available in this view yet.

23830 days

62090 days

4.3K1 year

Compare downloads with other packages →

Also on121 r2u1 autocran

How downloads are counted

Repository

ageyerschulz/xegaselectgene ↗Account: ageyerschulz

0Stars

0Forks

0Open issues

0Open PRs

0Releases

Last activity 2026-09-07

Responsiveness

not measured

How these are measured

PracticesBeta

Checks run against github.com/ageyerschulz/xegaselectgene on 2026-10-11.

No development-tooling practices detected in the upstream repository.

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

Dependencies

Declared dependencies

1 external dependency (excludes base and recommended)

Installing xegaSelectGene adds no packages beyond those that come with R.

Depends (0)

none

Imports (0)

none

LinkingTo (0)

none

Suggests (1)

testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

8direct

0indirect

Imports 8

Depends, Imports or LinkingTo, most downloaded first

xegaGpGene xegaGeGene xega xegaGaGene xegaDfGene xegaPermGene xegaPopulation xegaMigration

How these are counted

Code & Tests

People & History

People (1)

Andreas Geyer-Schulz

Author, Maintainer since 1.0.0.0 (2024)

Releases (3)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
1.0.0.4Latest
record
2026-02-13 · current release · diff ↗ ·
added 1 export
SelectTopK
1.0.0.3
record
2025-04-16 · diff ↗
R
R 4.5.0 released · 2025-04-11
R
R 4.4.0 released · 2024-04-24
1.0.0.0
record
2024-02-02
R
R 4.3.0 released · 2023-04-21

Package metadata

First published: 2024-02-02
Total releases: 3 / 2 yrs
License: MIT + file LICENSE OSI
Download size: 54 KB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("xegaSelectGene")

Format

Geyer-Schulz, A. (2026). xegaSelectGene: Selection of Genes and Gene Representation Independent Functions (Version 1.0.0.4) [Computer software]. https://doi.org/10.32614/CRAN.package.xegaSelectGene

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 xegaSelectGene version 1.0.0.4 [Data set]. HJJB, LLC. Data release v2026-10-17. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-17, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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