R Observatory: Metrics for GeneCycle version 1.1.6

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

GeneCycle

1.1.6

Identification of Periodically Expressed Genes

0packages depend

5.5Kdownloads / year

–test coverage

13/13checks pass

Overview

About

Maintained by Miika AhdesmakiFirst published 2006-08-1112 releasesCRAN page ↗

The GeneCycle package implements the approaches of Wichert et al. (2004) doi:10.1093/bioinformatics/btg364, Ahdesmaki et al. (2005) doi:10.1186/1471-2105-6-117 and Ahdesmaki et al. (2007) DOI:10.1186/1471-2105-8-233 for detecting periodically expressed genes from gene expression time series data.

Install

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

install.packages("GeneCycle", 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-genecycle

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled.

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-GeneCycle

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-GeneCycle

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed).

Health

CRAN checks

13OK

Slowest check: 1.0 min · r-oldrel-macos-x86_64

Code health

None

Tests · ratio 0.00

not tracked

Coverage

3

Dependencies · direct

Check history

OK2026-08-05
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
NOTE2026-08-01
12 OK · 1 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMENoVignettesNopkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 86%
Documented parameters: not tracked
Return-value docs: not tracked
References docs: 50%

Downloads

5.5K

CRAN downloads in the past year

Rank #9,976 · ~15/day · ~457/mo

Releases R versions

Daily download trend is not available in this view yet.

23130 days

98090 days

5.5K1 year

Compare downloads with other packages →

Also on117 r2u17 autocran58 c2d4u

Dependencies

Declared dependencies

2 external dependencies (excludes base and recommended)

Depends (4)

R >= 2.7.0MASSlongitudinal fdrtool (>= 1.2.5)

Imports (0)

none

LinkingTo (0)

none

Suggests (0)

none

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

People & History

People (3)

Maintainer (1)

Miika Ahdesmaki

Author, Maintainer

Authors (3)

Miika Ahdesmaki

Author, Maintainer

Konstantinos Fokianos

Author

Korbinian Strimmer

Author · added in 1.1.6

Listed in earlier versions (1)

and Korbinian Strimmer.

no longer listed · 1.0.0 to 1.1.5

Package Timeline

12 releases. Pick two to compare their code metrics. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
R
R 4.5.0 released · 2025-04-11
1.1.6Latest
2025-04-02 · current release · diff ↗
R
R 4.4.0 released · 2024-04-24
R
R 4.3.0 released · 2023-04-21
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
1.1.5
2021-01-05 · diff ↗
R
R 4.0.0 released · 2020-04-24
R
R 3.6.0 released · 2019-04-26
1.1.4
2019-04-25 · diff ↗
1.1.3
2019-04-18 · diff ↗
R
R 3.5.0 released · 2018-04-23
R
R 3.4.0 released · 2017-04-21
R
R 3.3.0 released · 2016-05-03
R
R 3.2.0 released · 2015-04-16

Show 23 earlier events

R
R 3.1.0 released · 2014-04-10
R
R 3.0.0 released · 2013-04-03
1.1.2
2012-04-16 · diff ↗
R
R 2.15.0 released · 2012-03-30
R
R 2.14.0 released · 2011-10-31
R
R 2.13.0 released · 2011-04-13
R
R 2.12.0 released · 2010-10-15
R
R 2.11.0 released · 2010-04-22
R
R 2.10.0 released · 2009-10-26
R
R 2.9.0 released · 2009-04-17
1.1.1
2009-04-14 · diff ↗
R
R 2.8.0 released · 2008-10-20
1.1.0
2008-07-11 · diff ↗
1.0.4
2008-06-03 · diff ↗
R
R 2.7.0 released · 2008-04-22
1.0.3
2008-02-06 · diff ↗
R
R 2.6.0 released · 2007-10-03
R
R 2.5.0 released · 2007-04-24
1.0.2
2007-02-18 · diff ↗
R
R 2.4.0 released · 2006-10-03
1.0.1
2006-09-29 · diff ↗
1.0.0
2006-08-11
R
R 2.3.0 released · 2006-04-24

Package metadata

First published: 2006-08-11
Total releases: 12 / 20 yrs
License: GPL (>= 3) OSI
Minimum R: ≥ 2.7.0
Bundled data: 118 KB / 1 file
Download size: 139 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Appears in task views

Genomics, Proteomics, Metabolomics, Transcriptomics, and Other Omics

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("GeneCycle")

Format

Ahdesmaki, M., Fokianos, K., & Strimmer, K. (2025). GeneCycle: Identification of Periodically Expressed Genes (Version 1.1.6) [Computer software]. https://doi.org/10.32614/CRAN.package.GeneCycle

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 GeneCycle version 1.1.6 [Data set]. HJJB, LLC. Data release v2026-08-15. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-15, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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