R Observatory: Metrics for phase12designs version 0.3.1

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

phase12designs

0.3.1Package record

Comprehensive Tools for Running Model-Assisted Phase I/II Trial Simulations

0packages depend

1.8Kdownloads / year

–test coverage

13/13flavors OK

Overview

About

Maintained by Angela CaoCRAN page ↗

Provides a comprehensive set of tools to simulate, evaluate, and compare model-assisted designs for early-phase (Phase I/II) clinical trials, including: - BOIN12 (Bayesian optimal interval phase 1/11 trial design; Lin et al. (2020) doi:10.1200/PO.20.00257), - BOIN-ET (Takeda, K., Taguri, M., & Morita, S. (2018) doi:10.1002/pst.1864), - EffTox (Thall, P. F., & Cook, J. D. (2004) doi:10.1111/j.0006-341X.2004.00218.x), - Ji3+3 (Joint i3+3 design; Lin, X., & Ji, Y. (2020) doi:10.1080/10543406.2020.1818250), - PRINTE (probability intervals of toxicity and efficacy design; Lin, X., & Ji, Y. (2021) doi:10.1177/0962280220977009), - STEIN (simple toxicity and efficacy interval design; Lin, R., & Yin, G. (2017) doi:10.1002/sim.7428), - TEPI (toxicity and efficacy probability interval design; Li, D. H., Whitmore, J. B., Guo, W., & Ji, Y. (2017) doi:10.1158/1078-0432.CCR-16-1125), - uTPI (utility-based toxicity Probability interval design; Shi, H., Lin, R., & Lin, X. (2024) doi:10.1002/sim.8922). Includes flexible simulation parameters that allow researchers to efficiently compute operating characteristics under various fixed and random trial scenarios and export the results.

Install

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

install.packages("phase12designs", 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-phase12designs

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-phase12designs

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-phase12designs

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: 3.8 min · r-oldrel-windows-x86_64

Status changes

OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK13 OK2026-07-29
ERROR12 OK, 1 ERROR2026-07-27
OK13 OK2026-06-09

Show 3 earlier changesHide 3 earlier changes

ERROR12 OK, 1 ERROR2026-06-08
WARNING12 OK, 1 WARNING2026-06-07
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 0.3.1

READMENoVignettesYes · 1 · dynamicNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 17
Examples that run: 100%17 run in a plain check
Exported functions with examples: 100%
Documented parameters: 98%
Return-value docs: 100%
Help pages citing references: 0%

Vignettes (1)

Getting Started HTML

How these are measured

Downloads

1.8K

CRAN downloads in the past year

Rank #24,117 · ~5/day · ~151/mo

Releases R versions

Daily download trend is not available in this view yet.

19430 days

51490 days

1.8K1 year

Compare downloads with other packages →

Also on52 r2u2 autocran

How downloads are counted

Dependencies

Declared dependencies

4 external dependencies (excludes base and recommended)

Installing phase12designs adds 64 packages (33 with compiled code, 66 MB of source tarballs). Heaviest: BH 14 MB, stringi 11 MB, ggplot2 6.0 MB.

Depends (0)

none

Imports (2)

trialr Iso

LinkingTo (0)

none

Suggests (2)

knitr rmarkdown

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

How these are counted

Code & Tests

People & History

People (2)

Angela Cao

Author, Maintainer since 0.3.1 (2025)

Haolun Shi

Contributor

Releases (1)

R
R 4.6.0 released · 2026-04-24
0.3.1Latest
record
2025-09-02 · current release
R
R 4.5.0 released · 2025-04-11

Package metadata

First published: 2025-09-02
Total releases: 1 / 1 yrs
License: MIT + file LICENSE OSI
Download size: 31 KB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("phase12designs")

Format

Cao, A., & Shi, H. (2025). phase12designs: Comprehensive Tools for Running Model-Assisted Phase I/II Trial Simulations (Version 0.3.1) [Computer software]. https://doi.org/10.32614/CRAN.package.phase12designs

This package has no citation file, so citation() returns this entry built from DESCRIPTION.

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 phase12designs version 0.3.1 [Data set]. HJJB, LLC. Data release v2026-10-22. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-22, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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