R Observatory: Metrics for BiplotML version 1.1.1

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

BiplotML

1.1.1Package record

Logistic Biplot Estimation Using Machine Learning Algorithms

0packages depend

2.2Kdownloads / year

–test coverage

13/13flavors OK

Overview

About

Maintained by Jose Giovany Babativa-MarquezCRAN page ↗GitHub ↗Issues ↗

Implements methods for fitting logistic biplot models to multivariate binary data. The logistic biplot represents individuals as points and binary variables as directed vectors in a low-dimensional subspace; the orthogonal projection of each individual onto a variable vector approximates the expected probability that the corresponding characteristic is present. Available fitting methods include conjugate gradient algorithms, a coordinate descent Majorization-Minimization (MM) algorithm, and a block coordinate descent algorithm based on data projection that supports matrices with missing values and allows new individuals to be projected as supplementary rows without refitting the model. A cross-validation procedure is provided to select the number of latent dimensions k. References: Babativa-Marquez and Vicente-Villardon (2021) doi:10.3390/math9162015; Vicente-Villardon and Galindo (2006, ISBN:9780470973196).

Changes in 1.1.1

Resubmission to CRAN

This version restores the package to CRAN after it was archived on 2023-10-29

due to a dependency on the optimr package, which was removed from CRAN at the

maintainer's request. All calls to optimr() now use optimx::optimr(), which

is the current home of that function.

Dependency changes

The optimr package has been removed from Imports. Its function optimr() is now imported from optimx, which absorbed it.
optimr, optimx, and shapes moved from Depends to Imports, in line with CRAN policy.
RSpectra moved from Suggests to Imports, since it is unconditionally required for large matrices in proj_LogBip().

Show all changes in 1.1.1Hide the rest of the changes in 1.1.1

Bug fixes

bootBLB(): fixed a column-naming bug that caused plotBLB() to fail with "Column 'Dim1' not found" after bootstrap aggregation.
bootBLB(): suppressed verbose control messages printed to the console by optimx::optimr() when using the CG method.
Fixed typo Sensitivy -> Sensitivity in the confusion-matrix output of bootBLB() and pred_LB().

Internal changes

All non-ASCII characters (typographic dashes, accented letters) in R source files replaced with portable ASCII equivalents, as required by CRAN.
utils::globalVariables() declaration moved to R/zzz.R to prevent a roxygen2 block error in plotBLB.R.
Removed incorrect importFrom(stats, svd) and importFrom(stats, eigen) from NAMESPACE: both functions belong to base R.
All ggplot2::aes() calls updated to use .data[[]] tidy evaluation, eliminating R CMD check NOTEs about undefined global variables.
inst/CITATION updated from the deprecated citEntry() to bibentry().
sdv_MM(): loop variable j initialised before the loop to prevent a potential "object not found" error on zero iterations.
RoxygenNote updated to 7.3.3.

---

From NEWS.md in the release

Install

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

install.packages("BiplotML", 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("jgbabativam/BiplotML")

Development version from jgbabativam/BiplotML. 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-biplotml

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-BiplotML

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-BiplotML

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: 1.1 min · r-oldrel-windows-x86_64

Status changes

OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK7 OK2026-05-09

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.1.1

README· In the repository, left out of the releaseVignettesNoNEWSYes · 100% structured · mentions 1.1.1Citation fileYes · cites a publicationWebsitenot declared in DESCRIPTION

Help pages: 11
Examples that run: 27%3 run in a plain check · 8 only when donttest examples are enabled (R CMD check --as-cran)
Exported functions with examples: 100%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 64%

How these are measured

Downloads

2.2K

CRAN downloads in the past year

Rank #9,880 · ~6/day · ~179/mo

Releases R versions

Daily download trend is not available in this view yet.

35730 days

1K90 days

2.2K1 year

Compare downloads with other packages →

Also on71 r2u27 autocran

How downloads are counted

Repository

jgbabativam/biplotml ↗Account: jgbabativam

1Stars

0Forks

0Open issues

0Open PRs

0Releases

33Commits

1Commit identities

33 commits · Last activity 2026-05-03 · 0% stars, 30d

Responsiveness

not measured

Stars over time

2026-05-16 · 12026-07-07 · 1

How these are measured

PracticesBeta

3 development-tooling and community-health practices detected across 2 families in the upstream repository

Checks run against github.com/jgbabativam/biplotml on 2026-10-18.

CRAN release process (2)

cran-comments.mdCRAN-SUBMISSION

Lint, format, editor (1)

RStudio project

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

Dependencies

Declared dependencies

11 external dependencies (excludes base and recommended)

Installing BiplotML adds 7 packages (4 with compiled code, 8.4 MB of source tarballs). Heaviest: optimx 2.2 MB, nloptr 2.1 MB, Rcpp 1.8 MB.

Depends (1)

R >= 4.1.0

Imports (2)

optimx RSpectra

LinkingTo (0)

none

Suggests (9)

testthat knitr rmarkdown dplyr tidyr ggplot2 ggrepel pracma mvtnorm

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)

Jose Giovany Babativa-Marquez

Maintainer since 1.0.1 (2021), Author

Releases (3)

Pick two releases to compare their code metrics.

unarchivedReturned to CRAN
2026-05-08
1.1.1Latest
record
2026-05-08 · current release · diff ↗ ·
removed 1 export
bootBLB
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
archivedRemoved from CRAN
2023-10-29
requires archived package 'optimr'
R
R 4.3.0 released · 2023-04-21
1.1.0
record
2022-04-22 · diff ↗ ·
added 1 export
proj_LogBip
R
R 4.2.0 released · 2022-04-22
1.0.1
record
2021-06-23
R
R 4.1.0 released · 2021-05-18

Package metadata

First published: 2021-06-23
Total releases: 3 / 5 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 4.1.0
Bundled data: 0.6 KB / 1 file
Download size: 31 KB

Cite

Cite this package

Run in R for the authors' entry:

citation("BiplotML")

The package provides a citation file, so citation() returns the authors' own entry.

It points to 10.3390/math9162015.

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 BiplotML version 1.1.1 [Data set]. HJJB, LLC. Data release v2026-10-21. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-21, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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