R Observatory: Metrics for bpca version 1.5-0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

bpca

1.5-0Package record

Biplot Analysis for Multivariate Data Using Principal Components

0packages depend

9.1Kdownloads / year

92.5%test coverage

13/13flavors OK

Overview

About

Maintained by José C. FariaCRAN page ↗GitHub ↗Issues ↗

Provides tools for creating 2D and 3D biplots of multivariate data based on principal components analysis, together with diagnostics for reduction quality and enhanced visualization of variables and objects.

Changes in 1.5-0

Breaking changes

var.rdf() now returns a structured list of class 'var.rdf' instead of a plain character data.frame. The three fields are: $display (character data.frame with '*', '', and '-' entries, for tabular display), $numeric (numeric matrix of absolute percentage differences), and $flagged (logical matrix, TRUE where the discrepancy exceeds limit). Code that accessed bp$var.rd as a data.frame directly must be updated to use bp$var.rd$display.
summary.bpca() no longer accepts the presentation argument. The printing behaviour previously triggered by presentation = TRUE is now handled by the new print.summary.bpca() S3 method; calling print(summary(bp)) produces the same output.

New S3 methods

print.var.rdf(): printing a var.rdf object (e.g. print(bp$var.rd)) automatically displays the character table ($display).
print.summary.bpca(): separates computation from presentation following R's S3 convention. summary.bpca() now only computes and returns the summary object; print.summary.bpca() handles console output.

Internal refactoring (no public API change)

New file R/bpca-utils.R introduces four shared internal helpers that eliminate duplicated code across the package:
.center_scale(x, center, scale): centering and scaling logic previously duplicated between bpca.default() and dt.tools().
.cosine_matrix(m): pairwise cosine similarity between rows of a matrix, previously duplicated between var.rbf() and dt.tools().
.compute_var_factor(coobj, covar): automatic variable-scaling factor for biplots, previously duplicated between plot.bpca.2d() and plot.bpca.3d().
.pc_axis_labels(eigenvalues, dims): axis labels in "PC1 (38.5%)" format, previously duplicated between plot.bpca.2d() and plot.bpca.3d().

Show all changes in 1.5-0Hide the rest of the changes in 1.5-0

plot.bpca.2d() decomposed from a single 634-line function into three files:
R/plot.bpca.2d.helpers.R: eight internal drawing functions (.draw_obj(), .draw_var(), .draw_var_seg(), .draw_circles(), .draw_axis_cross(), .proj_on_direction(), .solve_orthogonal_intersection(), .draw_circles_at()), extracted from closures that were recreated on every call.
R/plot.bpca.2d.types.R: ten internal type functions (.plot_type_bp() through .plot_type_rv()), one per switch branch, each independently readable and testable.
R/plot.bpca.2d.R: reduced to ~160 lines — validation, state preparation, context list (ctx) construction, and dispatch via switch().
pc.names in bpca.default() is now generated once and reused for svdx.scal$v, g.scal, and hl.scal column names (previously generated twice).
The fragile while loop in plot.bpca.2d(type = 'ww') — which relied on an NA sentinel at the end of chull() output — was replaced by a for loop with circular indexing over all convex-hull edges, including the closing edge.

Testing

Test suite expanded from 3 to 45 tests. New coverage includes: all four factorization methods (hj, sqrt, jk, gh); all four centering modes (center = 0:3); all four internal helpers (.center_scale, .cosine_matrix, .compute_var_factor, .pc_axis_labels); var.rbf and var.rdf (including the new list structure); dt.tools; qbpca; summary.bpca and print.summary.bpca; all ten 2D plot types; 3D static plot; plot.qbpca; and bpca.prcomp.

From NEWS.md in the release

Install

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

install.packages("bpca", 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("jcfaria/bpca")

Development version from jcfaria/bpca. 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-bpca

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-bpca

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-bpca

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: 1.8 min · r-oldrel-windows-x86_64

Status changes

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 1.5-0

READMEYes · 249 wordsVignettesYes · 2 · dynamicNEWSYes · 100% structured · mentions 1.5-0Citation fileYes · computed when R runs itWebsitenot declared in DESCRIPTION

Help pages: 14includes a package overview page
Examples that run: 100%14 run in a plain check
Exported functions with examples: 100%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 57%

Also includes 12 demo scripts (run with demo())

Vignettes (2)

bpca Overview HTML
LaTeX tables for bpca objects PDF

How these are measured

Downloads

9.1K

CRAN downloads in the past year

Rank #4,996 · ~25/day · ~761/mo

Releases R versions

Daily download trend is not available in this view yet.

73130 days

1.6K90 days

9.1K1 year

Compare downloads with other packages →

Also on161 r2u19 autocran2K conda_forge117 c2d4u

How downloads are counted

Repository

jcfaria/bpca ↗Account: jcfaria

4Stars

2Forks

0Open issues

0Open PRs

0Releases

42Commits

3Commit identities

42 commits · Last activity 2026-10-06 · 0% stars, 30d · Default branch at 1.5-1, ahead of CRAN 1.5-0 (checked 2026-10-11)

Responsiveness

How these are sampled

PRs merged (all time): 100%
Median days to close, 50 most recently updated closed issues: not measured
Median days to close, 50 most recently updated closed PRs: 0

Stars over time

2017-04-19 · 32026-07-07 · 4

How these are measured

PracticesBeta

Checks run against github.com/jcfaria/bpca on 2026-10-11.

No development-tooling practices detected in the upstream repository.

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

AI coding toolsBeta

This repository shows signs of AI coding tools.

Cursorfirst seen 2026-04-30
Pull request it wrote: opened by a project member
Commits: 2 by its own account · at least 21 crediting it in the message
Claude Codefirst seen 2026-10-06
Commits: at least 1 crediting it in the message

Models named in its commits

Claude Opus 5.51 commit · Oct 2026

Counts are commits, not lines of code. Commits by a tool's accounts count once across all of its accounts. Commits crediting it are the largest count among its credit lines, a minimum.How this is detected·Detection ruleset v4 (updated 2026-09-27)

Dependencies

Declared dependencies

6 external dependencies (excludes base and recommended)

Installing bpca adds 30 packages (16 with compiled code, 24 MB of source tarballs). Heaviest: bslib 5.6 MB, rgl 4.0 MB, sass 2.9 MB.

Depends (1)

R >= 4.1.0

Imports (3)

scatterplot3d rgl xtable

LinkingTo (0)

none

Suggests (3)

knitr rmarkdown testthat

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 (3)

José C. Faria

Author, Maintainer · added in 1.3-6

Ivan B. Allaman

Author · added in 1.3-6

Clarice G. B. Demétrio

Author · added in 1.3-6

Maintainer since 1.0.2 (2008)

Listed in earlier versions (2)

Clarice Garcia Borges Demetrio

no longer listed · 1.0.2 to 1.0-10

Jose Claudio Faria

no longer listed · 1.0.2 to 1.0-10

Releases (15)

Pick two releases to compare their code metrics.

1.5-0Latest
record
2026-05-25 · current release · diff ↗
1.4-3
record
2026-05-11 · diff ↗ ·
removed 1 export
pattern:.

added 6 exports
bpca, dt.tools, qbpca, var.rbf, var.rdf, xtable.bpca
R
R 4.6.0 released · 2026-04-24
1.3-9
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2026-04-21 · diff ↗
1.3-8
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2025-09-11 · diff ↗
R
R 4.5.0 released · 2025-04-11
R
R 4.4.0 released · 2024-04-24
unarchivedReturned to CRAN
2023-11-20
1.3-6
record
2023-11-20 · diff ↗
archivedRemoved from CRAN
2023-09-13
issues were not corrected despite reminders
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
1.3-4
record
2021-03-22 · diff ↗
1.3-2
record
2020-05-10 · diff ↗
R
R 4.0.0 released · 2020-04-24

Show 24 earlier eventsHide 24 earlier events

R
R 3.6.0 released · 2019-04-26
1.3-0
record
2018-06-12 · diff ↗
R
R 3.5.0 released · 2018-04-23
R
R 3.4.0 released · 2017-04-21
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R 3.3.0 released · 2016-05-03
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R 3.2.0 released · 2015-04-16
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R 3.1.0 released · 2014-04-10
1.2-2
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2013-11-24 · diff ↗
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R 3.0.0 released · 2013-04-03
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R 2.15.0 released · 2012-03-30
1.0-10
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2012-02-21 · diff ↗ ·
added 1 export
pattern:.
R
R 2.14.0 released · 2011-10-31
1.0-8
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2011-04-24 · diff ↗
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R 2.13.0 released · 2011-04-13
1.0-5
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2011-04-10 · diff ↗
1.0-4
record
2011-03-24 · diff ↗
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R 2.12.0 released · 2010-10-15
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R 2.11.0 released · 2010-04-22
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R 2.10.0 released · 2009-10-26
1.0.3
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2009-06-22 · diff ↗
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R 2.9.0 released · 2009-04-17
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R 2.8.0 released · 2008-10-20
1.0.2
record
2008-08-17
R
R 2.7.0 released · 2008-04-22

Package metadata

First published: 2008-08-17
Total releases: 15 / 18 yrs
License: GPL-2 OSI
Minimum R: ≥ 4.1.0
Bundled data: 1.6 KB / 4 files
Download size: 263 KB

Appears in task views

Psychometric Models and Methods

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("bpca")

The package provides a citation file that builds its entry when R runs it. Run citation() to see it.

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 bpca version 1.5-0 [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.

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