R Observatory: Metrics for EMMIXgene version 0.1.4

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

EMMIXgene

0.1.4Package record

A Mixture Model-Based Approach to the Clustering of Microarray Expression Data

0packages depend

3.1Kdownloads / year

–test coverage

13/13flavors OK

Overview

About

Maintained by Andrew Thomas JonesCRAN page ↗

Provides unsupervised selection and clustering of microarray data using mixture models. Following the methods described in McLachlan, Bean and Peel (2002) doi:10.1093/bioinformatics/18.3.413 a subset of genes are selected based one the likelihood ratio statistic for the test of one versus two components when fitting mixtures of t-distributions to the expression data for each gene. The dimensionality of this gene subset is further reduced through the use of mixtures of factor analyzers, allowing the tissue samples to be clustered by fitting mixtures of normal distributions.

Changes in 0.1.4

Removed unnecessary C++11 requirement
Updated description

From NEWS.md in the release

Install

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

install.packages("EMMIXgene", 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-emmixgene

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-EMMIXgene

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-EMMIXgene

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: 4.3 min · r-devel-windows-x86_64

Status changes

OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK12 OK2026-04-25
NOTE12 OK, 2 NOTE2026-04-22
ERROR11 OK, 2 NOTE, 1 ERROR2026-04-18

Show 1 earlier changeHide 1 earlier change

NOTE12 OK, 2 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 0.1.4

READMEYes · 108 wordsVignettesNoNEWSYes · 100% structured · mentions 0.1.4Citation fileYes · cites a publicationWebsitenot declared in DESCRIPTION

Help pages: 10includes a package overview page
Examples that run: 88%7 run in a plain check · 1 only when donttest examples are enabled (R CMD check --as-cran)
Exported functions with examples: 100%
Documented parameters: 98%
Return-value docs: 100%
Help pages citing references: 0%

How these are measured

Downloads

3.1K

CRAN downloads in the past year

Rank #10,804 · ~8/day · ~257/mo

Releases R versions

Daily download trend is not available in this view yet.

37130 days

95390 days

3.1K1 year

Compare downloads with other packages →

Also on385 r2u12 autocran53 c2d4u

How downloads are counted

Dependencies

Declared dependencies

8 external dependencies (excludes base and recommended)

Installing EMMIXgene adds 23 packages (11 with compiled code, 34 MB of source tarballs). Heaviest: BH 14 MB, ggplot2 6.0 MB, mclust 2.7 MB.

Depends (1)

R >= 3.3.0

Imports (7)

Rcppstatsmclust reshape ggplot2 scalestools

LinkingTo (3)

Rcpp RcppArmadillo BH

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 (1)

Andrew Thomas Jones

Author, Maintainer since 0.1.0 (2018)

Releases (5)

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
0.1.4Latest
record
2024-01-21 · current release · diff ↗
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
R
R 4.0.0 released · 2020-04-24
0.1.3
record
2020-03-23 · diff ↗
0.1.2
record
2020-02-09 · diff ↗
R
R 3.6.0 released · 2019-04-26
0.1.1
record
2019-01-04 · diff ↗
R
R 3.5.0 released · 2018-04-23
0.1.0
record
2018-04-03
R
R 3.4.0 released · 2017-04-21

Package metadata

First published: 2018-04-03
Total releases: 5 / 8 yrs
License: GPL (>= 3) OSI
Minimum R: ≥ 3.3.0
Bundled data: 1.7 MB / 2 files
Download size: 1.7 MB

Appears in task views

Genomics, Proteomics, Metabolomics, Transcriptomics, and Other Omics

Cite

Cite this package

Run in R for the authors' entry:

citation("EMMIXgene")

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 EMMIXgene version 0.1.4 [Data set]. HJJB, LLC. Data release v2026-10-18. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-18, which the citation names so these numbers can be found later. More on citing and the projects behind them.

Report a problem with this page →