R Observatory: Metrics for HTSCluster version 2.0.11

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

HTSCluster

2.0.11

Clustering High-Throughput Transcriptome Sequencing (HTS) Data

0packages depend

5.1Kdownloads / year

–test coverage

11/13checks pass

Overview

About

Maintained by Andrea RauFirst published 2011-11-079 releasesCRAN page ↗

A Poisson mixture model is implemented to cluster genes from high- throughput transcriptome sequencing (RNA-seq) data. Parameter estimation is performed using either the EM or CEM algorithm, and the slope heuristics are used for model selection (i.e., to choose the number of clusters).

Install

R (CRAN)Ubuntu (r2u)

install.packages("HTSCluster", 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-htscluster

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

Health

CRAN checks

2NOTE11OK

Failing flavors

NOTE r-devel-linux-x86_64-debian-clang
NOTE r-devel-linux-x86_64-debian-gcc

Slowest check: 1.5 min · r-oldrel-windows-x86_64

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

6

Dependencies · direct

Check history

NOTE2026-03-10
12 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 70 wordsVignettesYes · dynamicpkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 100%
Return-value docs: 100%
References docs: 91%

Downloads

5.1K

CRAN downloads in the past year

Rank #8,811 · ~14/day · ~421/mo

Releases R versions

Daily download trend is not available in this view yet.

28230 days

1K90 days

5.1K1 year

Compare downloads with other packages →

Also on120 r2u797 bioconda17 c2d4u

Dependencies

Declared dependencies

5 external dependencies (excludes base and recommended)

Depends (1)

R >= 2.10.0

Imports (6)

edgeR plotrix capushegrDevicesgraphicsstats

LinkingTo (0)

none

Suggests (2)

HTSFilter Biobase

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

People & History

People (0)

Author records are not tracked yet for this package.

Listed in earlier versions (5)

Gilles Celeux

no longer listed · 1.0 to 2.0.11

Marie-Laure Martin-Magniette

no longer listed · 1.0 to 2.0.11

Cathy Maugis-Rabusseau

no longer listed · 1.0 to 2.0.4

Andrea Rau

no longer listed · 1.0 to 2.0.11

Cathy Maugis- Rabusseau

no longer listed · 2.0.8 to 2.0.11

Package Timeline

9 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
R
R 4.4.0 released · 2024-04-24
2.0.11Latest
2023-09-05 · current release · diff ↗
R
R 4.3.0 released · 2023-04-21
2.0.10
2022-08-24 · diff ↗
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
R
R 3.6.0 released · 2019-04-26
R
R 3.5.0 released · 2018-04-23
R
R 3.4.0 released · 2017-04-21
2.0.8
2016-05-26 · diff ↗
R
R 3.3.0 released · 2016-05-03
R
R 3.2.0 released · 2015-04-16
2.0.4
2014-08-26 · diff ↗

Show 9 earlier events

2.0.3
2014-07-28 · diff ↗
R
R 3.1.0 released · 2014-04-10
2.0.1
2013-12-10 · diff ↗
2.0.0
2013-09-25 · diff ↗
R
R 3.0.0 released · 2013-04-03
1.1
2012-06-11 · diff ↗
R
R 2.15.0 released · 2012-03-30
1.0
2011-11-07
R
R 2.14.0 released · 2011-10-31

Package metadata

First published: 2011-11-07
Total releases: 9 / 15 yrs
License: GPL (>= 3) OSI
Minimum R: ≥ 2.10.0
Download size: 379 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("HTSCluster")

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 HTSCluster version 2.0.11 [Data set]. HJJB, LLC. Data release v2026-08-22. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-22, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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