SIMPLICA

1.0.0

Biclustering via Simplivariate Component Analysis

0packages depend

1.6Kdownloads / year

–test coverage

13/13checks pass

Overview

About

Maintained by Jos HagemanFirst published 2025-09-031 releasesCRAN page ↗GitHub ↗

Identifies constant, additive, multiplicative, and user-defined simplivariate components in numeric data matrices using a genetic algorithm. Supports flexible pattern definitions and provides visualization for general biclustering applications across diverse domains. The method builds on simplivariate models as introduced in Hageman et al. (2008) doi:10.1371/journal.pone.0003259 and is related to biclustering frameworks as reviewed by Madeira and Oliveira (2004) doi:10.1109/TCBB.2004.2.

Install

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

install.packages("SIMPLICA", 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("joshageman/SIMPLICA")

Development version from joshageman/SIMPLICA. 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-simplica

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

# 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-SIMPLICA

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-SIMPLICA

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed).

Health

CRAN checks

13OK

Slowest check: 1.0 min · r-oldrel-windows-x86_64

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

None

Vignettes

README

Dependencies · direct

Check history

OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Downloads

1.6K

CRAN downloads in the past year

Rank #23,549 · ~4/day · ~130/mo

Releases R versions

Daily download trend is not available in this view yet.

19730 days

45590 days

1.6K1 year

Compare downloads with other packages →

Also on57 r2u13 autocran

Repository

GitHub ↗ joshageman/simplica

3Stars

0Forks

0Open issues

0Open PRs

0Releases

Stars over time

2025-09-03 · 12026-07-07 · 3

Dependencies

Declared dependencies

3 external dependencies (excludes base and recommended)

Depends (1)

R >= 2.10

Imports (3)

GA ggplot2 ggsci

LinkingTo (0)

none

Suggests (0)

none

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Code Composition

R 1,491 (66%)Rd 768 (34%)

Code characteristics

Object systems

S31

Cyclomatic complexity: 3.0 median / 31 max
Documented parameters: 99%

Test coverage

Line coverage

–

Expression

–

Tests / Examples

–

Functions

18 17 exported

Complexity

7.8 avg / 31 max

Call network

18 nodes / 10 edges

Test coverage has not been measured for this package yet; nodes fall back to a neutral fill.

Call graph

Open call graph →

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Lowest coverage

Per-function coverage is not measured for this package yet.

People & History

People (1)

Maintainer (1)

Jos Hageman

Author, Maintainer

Authors (1)

Jos Hageman

Author, Maintainer

Release timeline

1 release. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
1.0.0Latest
2026-03-10 · current release
R
R 4.5.0 released · 2025-04-11

Package metadata

First published: 2025-09-03
Total releases: 1 / 1 yrs
License: GPL-3 OSI
Minimum R: ≥ 2.10
Bundled data: 52 KB / 1 file
Download size: 81 KB
Installed size: not tracked yet
With dependencies: not tracked yet