R Observatory: Metrics for M3JF version 0.1.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

M3JF

0.1.0Package record

Multi-Modal Matrix Joint Factorization for Integrative Multi-Omics Data Analysis

0packages depend

2Kdownloads / year

–test coverage

13/13flavors OK

Overview

About

Maintained by Xiaoyao YinCRAN page ↗

Multi modality data matrices are factorized conjointly into the multiplication of a shared sub-matrix and multiple modality specific sub-matrices, group sparse constraint is applied to the shared sub-matrix to capture the homogeneous and heterogeneous information, respectively. Then the samples are classified by clustering the shared sub-matrix with kmeanspp(), a new version of kmeans() developed here to obtain concordant results. The package also provides the cluster number estimation by rotation cost. Moreover, cluster specific features could be retrieved using hypergeometric tests.

Install

R (CRAN)Ubuntu (r2u)

install.packages("M3JF", 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-m3jf

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

Health

CRAN checks

13OK

CRAN check page ↗

Slowest check: 2.8 min · r-oldrel-windows-x86_64

Status changes

OK13 OK2026-09-08
ERROR12 OK, 1 ERROR2026-09-07
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 0.1.0

READMENoVignettesYes · 1 · dynamicNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 13
Examples that run: 100%13 run in a plain check
Exported functions with examples: 100%
Documented parameters: 93%
Return-value docs: 100%
Help pages citing references: 0%

Vignettes (1)

An Introduction to the package M3JF HTML

How these are measured

Downloads

2K

CRAN downloads in the past year

Rank #22,842 · ~6/day · ~170/mo

Releases R versions

Daily download trend is not available in this view yet.

21930 days

58090 days

2K1 year

Compare downloads with other packages →

Also on59 r2u

How downloads are counted

Dependencies

Declared dependencies

5 external dependencies (excludes base and recommended)

Installing M3JF adds 45 packages (19 with compiled code, 36 MB of source tarballs). Heaviest: stringi 11 MB, ggplot2 6.0 MB, colorspace 2.0 MB. 1 more not on CRAN is not measured.

Depends (0)

none

Imports (5)

MASSSNFtool dplyr InterSIMstats

LinkingTo (0)

none

Suggests (2)

knitr rmarkdown

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

How these are counted

Code & Tests

People & History

People (1)

Xiaoyao Yin

Author, Maintainer since 0.1.0 (2023)

Releases (1)

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
0.1.0Latest
record
2023-08-14 · current release
R
R 4.3.0 released · 2023-04-21

Package metadata

First published: 2023-08-14
Total releases: 1 / 3 yrs
License: GPL-3 OSI
Download size: 22 KB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("M3JF")

Format

Yin, X. (2023). M3JF: Multi-Modal Matrix Joint Factorization for Integrative Multi-Omics Data Analysis (Version 0.1.0) [Computer software]. https://doi.org/10.32614/CRAN.package.M3JF

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 M3JF version 0.1.0 [Data set]. HJJB, LLC. Data release v2026-10-25. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-25, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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