R Observatory: Metrics for trialr version 0.1.6

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

trialr

0.1.6Package record

Clinical Trial Designs in 'rstan'

6packages depend

7.9Kdownloads / year

53.5%test coverage

13/13flavors OK

Overview

About

Maintained by Kristian BrockCRAN page ↗GitHub ↗Issues ↗

A collection of clinical trial designs and methods, implemented in 'rstan' and R, including: the Continual Reassessment Method by O'Quigley et al. (1990) doi:10.2307/2531628; EffTox by Thall & Cook (2004) doi:10.1111/j.0006-341X.2004.00218.x; the two-parameter logistic method of Neuenschwander, Branson & Sponer (2008) doi:10.1002/sim.3230; and the Augmented Binary method by Wason & Seaman (2013) doi:10.1002/sim.5867; and more. We provide functions to aid model-fitting and analysis. The 'rstan' implementations may also serve as a cookbook to anyone looking to extend or embellish these models. We hope that this package encourages the use of Bayesian methods in clinical trials. There is a preponderance of early phase trial designs because this is where Bayesian methods are used most. If there is a method you would like implemented, please get in touch.

Install

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

install.packages("trialr", 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("brockk/trialr")

Development version from brockk/trialr. 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-trialr

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-trialr

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-trialr

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: 40.9 min · r-oldrel-windows-x86_64

Status changes

OK13 OK2026-08-04
NOTE12 OK, 1 NOTE2026-08-01
OK13 OK2026-07-29
ERROR12 OK, 1 ERROR2026-07-27
OK13 OK2026-06-09

Show 5 earlier changesHide 5 earlier changes

ERROR12 OK, 1 ERROR2026-06-08
OK12 OK2026-04-25
NOTE11 OK, 3 NOTE2026-04-22
ERROR10 OK, 3 NOTE, 1 ERROR2026-04-18
NOTE11 OK, 3 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 0.1.6

READMEYes · 1,537 wordsVignettesYes · 9 · dynamicNEWSYes · 100% structured · does not mention 0.1.6Citation fileNo

Help pages: 73includes a package overview page
Examples that run: 49%23 run in a plain check · 24 never run
Exported functions with examples: 85%
Documented parameters: 100%
Return-value docs: 87%
Help pages citing references: 29%

Vignettes (9)

How these are measured

Downloads

7.9K

CRAN downloads in the past year

Rank #4,989 · ~22/day · ~659/mo

Releases R versions

Daily download trend is not available in this view yet.

59630 days

1.7K90 days

7.9K1 year

Compare downloads with other packages →

Also on569 r2u4 autocran

How downloads are counted

Repository

brockk/trialr ↗Account: brockk

43Stars

11Forks

4Open issues

0Open PRs

0Releases

141Commits

5Commit identities

141 commits · Last activity 2023-10-15 · The default branch showed an older version (0.1.5.9001) than CRAN on 2026-10-22

Responsiveness

How these are sampled

PRs merged (all time): 100%
Median days to close, 50 most recently updated closed issues: 8
Median days to close, 50 most recently updated closed PRs: 14

Stars over time

2025-05-08 · 432026-07-07 · 43

How these are measured

PracticesBeta

9 development-tooling and community-health practices detected across 5 families in the upstream repository

Checks run against github.com/brockk/trialr on 2026-10-22.

Continuous integration (3)

GitHub ActionsR CMD check workflowTravis CI (config file)

The R CMD check workflow runs on Linux, macOS and Windows, and on R-devel

Docs source (3)

README.Rmdpkgdown

GitHub Pages site last deployed 2023-10-15

Coverage (1)

Coverage reporting (Codecov)

CRAN release process (1)

cran-comments.md

Show all practicesHide 1 practice

Lint, format, editor (1)

RStudio project

How this is detected·Detection ruleset v4 (2026-10-20)

Dependencies

Declared dependencies

26 external dependencies (excludes base and recommended)

Installing trialr adds 62 packages (31 with compiled code, 63 MB of source tarballs). Heaviest: BH 14 MB, stringi 11 MB, ggplot2 6.0 MB.

Depends (3)

R >= 3.5.0methodsRcpp

Imports (14)

rstan rstantools rlang dplyr purrr magrittr stringr ggplot2 gtools coda tidybayes tibble binomMASS

LinkingTo (6)

StanHeaders rstan BH (>= 1.69.0-1)Rcpp RcppEigen RcppParallel

Suggests (6)

testthat knitr rmarkdown tidyr ggridges DiagrammeR

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

6direct

1indirect

Imports 6

Depends, Imports or LinkingTo, most downloaded first

historicalborrowlong brms.mmrm escalation networkscaleup VisCov phase12designs

How these are counted

Code & Tests

People & History

People (2)

Kristian Brock

Author, Maintainer since 0.0.1 (2017)

Trustees of Columbia University

Copyright holder

Releases (14)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
R
R 4.5.0 released · 2025-04-11
R
R 4.4.0 released · 2024-04-24
R
R 4.3.0 released · 2023-04-21
0.1.6Latest
record
2023-03-12 · current release · diff ↗
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
0.1.5
record
2020-10-16 · diff ↗ ·
added 3 exports
efftox_priors, get_efftox_priors, stan_nbg
R
R 4.0.0 released · 2020-04-24
0.1.4
record
2020-04-06 · diff ↗
0.1.3
record
2020-01-08 · diff ↗ ·
added 5 exports
eff_at_dose, n_at_dose, total_weight_at_dose, tox_at_dose, weights_at_dose
0.1.2
record
2019-06-25 · diff ↗ ·
added 9 exports
augbin_2t_1a_fit, augbin_fit, binary_prob_success, prior_predictive_augbin_2t_1a, prob_success, rlkjcorr, stan_augbin, stan_augbin_demo, trialr_simulate
0.1.1
record
2019-05-25 · diff ↗ ·
added 13 exports
careful_escalation, closest_to_target, crm_codified_dose_logistic, crm_dtps, crm_path_analysis, crm_prior_beliefs, dose_finding_fit, dose_finding_path_node, efftox_dtps_to_dataframe, efftox_path_analysis, parse_eff_tox_dose_finding_outcomes, prob_tox_exceeds, spread_paths
R
R 3.6.0 released · 2019-04-26
0.1.0
record
2019-04-21 · diff ↗ ·
removed 8 exports
crm_process, gather_samples.crm_fit, efftox_process, gather_samples.efftox_fit, peps2_run_sims, thallhierarchicalbinary_parameters_demo, stan_files, stanmodels

added 3 exports
parse_dose_finding_outcomes, stan_hierarchical_response_thall, stan_peps2
0.0.7
record
2019-03-03 · diff ↗

Show 8 earlier eventsHide 8 earlier events

0.0.6
record
2019-01-17 · diff ↗
0.0.5
record
2018-11-12 · diff ↗
0.0.4
record
2018-10-24 · diff ↗
0.0.3
record
2018-08-09 · diff ↗
0.0.2
record
2018-08-08 · diff ↗ ·
added 11 exports
df_parse_outcomes, stan_crm, crm_params, crm_fit, crm_process, gather_samples.crm_fit, efftox_fit, efftox_params, gather_samples.efftox_fit, stan_efftox, stan_efftox_demo
R
R 3.5.0 released · 2018-04-23
0.0.1
record
2017-11-21
R
R 3.4.0 released · 2017-04-21

Package metadata

First published: 2017-11-21
Total releases: 14 / 9 yrs
License: GPL (>= 3) OSI
Minimum R: ≥ 3.5.0
Download size: 2.6 MB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("trialr")

Format

Brock, K., & Columbia University, T. o. (2023). trialr: Clinical Trial Designs in 'rstan' (Version 0.1.6) [Computer software]. https://doi.org/10.32614/CRAN.package.trialr

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 trialr version 0.1.6 [Data set]. HJJB, LLC. Data release v2026-10-23. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-23, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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