R Observatory: Metrics for fusedTree version 1.1.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

fusedTree

1.1.0

Fused Partitioned Regression for Clinical and Omics Data

0packages depend

5.7Kdownloads / year

–test coverage

13/13checks pass

Overview

About

Maintained by Jeroen M. GoedhartFirst published 2025-07-112 releasesCRAN page ↗

Fit (generalized) linear regression models in each leaf node of a tree. The tree is constructed using clinical variables only. The linear regression models are constructed using (high-dimensional) omics variables only. The leaf-node-specific regression models are estimated using the penalized likelihood including a standard ridge (L2) penalty and a fusion penalty that links the leaf-node-specific regression models to one another. The intercepts of the leaf nodes reflect the effects of the clinical variables and are left unpenalized. The tree, fitted with the clinical variables only, should be constructed outside of the package with the 'rpart' 'R' package. See Goedhart and others (2024) doi:10.48550/arXiv.2411.02396 for details on the method.

Install

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

install.packages("fusedTree", 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-fusedtree

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-fusedTree

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-fusedTree

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

Health

CRAN checks

13OK

Slowest check: 1.1 min · r-oldrel-windows-x86_64

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

5

Dependencies · direct

Check history

OK2026-08-05
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
NOTE2026-08-01
12 OK · 1 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 771 wordsVignettesNopkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 100%
Return-value docs: 100%
References docs: 40%

Downloads

5.7K

CRAN downloads in the past year

Rank #8,824 · ~16/day · ~479/mo

Releases R versions

Daily download trend is not available in this view yet.

18530 days

1K90 days

5.7K1 year

Compare downloads with other packages →

Also on85 r2u18 autocran

Dependencies

Declared dependencies

3 external dependencies (excludes base and recommended)

Depends (0)

none

Imports (5)

MatrixsplitToolssurvivaltreeClust partykit

LinkingTo (0)

none

Suggests (1)

rpart

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

People & History

People (5)

Maintainer (1)

Jeroen M. Goedhart

Author, Maintainer, Copyright holder

Authors (2)

Jeroen M. Goedhart

Author, Maintainer, Copyright holder

Wessel N. van Wieringen

Author

Copyright holders (1)

Jeroen M. Goedhart

Author, Maintainer, Copyright holder

Funders (1)

Hanarth Fonds

Funder

Other (2)

Thomas Klausch

Thesis advisor

Mark A. van de Wiel

Thesis advisor

Listed in earlier versions (3)

Mark A.

no longer listed · 1.0.1 to 1.1.0

Jeroen M.

no longer listed · 1.0.1 to 1.1.0

Wessel N.

no longer listed · 1.0.1 to 1.1.0

Package Timeline

2 releases. Pick two to compare their code metrics. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
1.1.0Latest
2025-08-20 · current release · diff ↗
1.0.1
2025-07-11
R
R 4.5.0 released · 2025-04-11

Package metadata

First published: 2025-07-11
Total releases: 2 / 1 yrs
License: GPL (>= 3) OSI
Download size: 43 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("fusedTree")

Format

Goedhart, J. M., Hanarth Fonds, Klausch, T., van Wieringen, W. N., & van de Wiel, M. A. (2025). fusedTree: Fused Partitioned Regression for Clinical and Omics Data (Version 1.1.0) [Computer software]. https://doi.org/10.32614/CRAN.package.fusedTree

This is what citation() produces when a package has no citation file of its own. If it prints something else, use that.

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 fusedTree version 1.1.0 [Data set]. HJJB, LLC. Data release v2026-08-21. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-21, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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