R Observatory: Metrics for ODT version 1.0.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

ODT

1.0.0

Optimal Decision Trees Algorithm

0packages depend

2.1Kdownloads / year

–test coverage

13/13checks pass

Overview

About

Maintained by Katyna Sada Del RealFirst published 2024-10-181 releasesCRAN page ↗

Implements a tree-based method specifically designed for personalized medicine applications. By using genomic and mutational data, 'ODT' efficiently identifies optimal drug recommendations tailored to individual patient profiles. The 'ODT' algorithm constructs decision trees that bifurcate at each node, selecting the most relevant markers (discrete or continuous) and corresponding treatments, thus ensuring that recommendations are both personalized and statistically robust. This iterative approach enhances therapeutic decision-making by refining treatment suggestions until a predefined group size is achieved. Moreover, the simplicity and interpretability of the resulting trees make the method accessible to healthcare professionals. Includes functions for training the decision tree, making predictions on new samples or patients, and visualizing the resulting tree. For detailed insights into the methodology, please refer to Gimeno et al. (2023) doi:10.1093/bib/bbad200.

Install

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

install.packages("ODT", 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-odt

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-ODT

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-ODT

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

Health

CRAN checks

13OK

Slowest check: 2.3 min · r-oldrel-windows-x86_64

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

9

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
OK2026-06-09
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-06-08
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-04-25
12 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Show 2 earlier snapshots

ERROR2026-03-18
13 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 450 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 33% structuredCode of conductNoContributing guideNo

Examples that run: 67%
Documented parameters: 95%
Return-value docs: 100%
References docs: 0%

Downloads

2.1K

CRAN downloads in the past year

Rank #20,697 · ~6/day · ~173/mo

Releases R versions

Daily download trend is not available in this view yet.

13230 days

53590 days

2.1K1 year

Compare downloads with other packages →

Also on111 r2u

Dependencies

Declared dependencies

11 external dependencies (excludes base and recommended)

Depends (5)

R >= 4.0matrixStats partykit data.treestats

Imports (5)

magick DiagrammeRsvggrDevicesDiagrammeR rsvg

LinkingTo (0)

none

Suggests (5)

RUnitMatrixrmarkdown robustbase knitr

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

People & History

People (4)

Maintainer (1)

Katyna Sada Del Real

Author, Maintainer

Authors (4)

Author, Maintainer

Author

Author

Author

Package 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: 2024-10-18
Total releases: 1 / 2 yrs
License: Artistic-2.0 OSI
Minimum R: ≥ 4.0
Bundled data: 1.5 MB / 6 files
Download size: 2.3 MB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("ODT")

Format

Sada Del Real, K., Eceiza, M., Rubio, A., & Ruiz, L. (2024). ODT: Optimal Decision Trees Algorithm (Version 1.0.0) [Computer software]. https://doi.org/10.32614/CRAN.package.ODT

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 ODT version 1.0.0 [Data set]. HJJB, LLC. Data release v2026-08-15. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-15, which the citation names so these numbers can be found later. More on citing and the projects behind them.

Report a problem with this page →