R Observatory: Metrics for RefBasedMI version 0.2.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

RefBasedMI

0.2.0Package record

Reference-Based Imputation for Longitudinal Clinical Trials with Protocol Deviation

0packages depend

3Kdownloads / year

–test coverage

13/13flavors OK

Overview

About

Maintained by Matteo QuartagnoCRAN page ↗GitHub ↗

Imputation of missing numerical outcomes for a longitudinal trial with protocol deviations. The package uses distinct treatment arm-based assumptions for the unobserved data, following the general algorithm of Carpenter, Roger, and Kenward (2013) doi:10.1080/10543406.2013.834911, and the causal model of White, Royes and Best (2020) doi:10.1080/10543406.2019.1684308. Sensitivity analyses to departures from these assumptions can be done by the Delta method of Roger. The program uses the same algorithm as the 'mimix' 'Stata' package written by Suzie Cro, with additional coding for the causal model and delta method. The reference-based methods are jump to reference (J2R), copy increments in reference (CIR), copy reference (CR), and the causal model, all of which must specify the reference treatment arm. Other methods are missing at random (MAR) and the last mean carried forward (LMCF). Individual-specific imputation methods (and their reference groups) can be specified.

Install

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

install.packages("RefBasedMI", 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("UCL/RefBasedMI")

Development version from UCL/RefBasedMI. 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-refbasedmi

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-RefBasedMI

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-RefBasedMI

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: 3.6 min · r-devel-windows-x86_64

Status changes

OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK13 OK2026-06-09
ERROR12 OK, 1 ERROR2026-06-08
OK13 OK2026-05-02

Show 2 earlier changesHide 2 earlier changes

ERROR11 OK, 1 ERROR2026-04-25
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 0.2.0

READMENoVignettesNoNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 4
Examples that run: 100%1 run in a plain check
Exported functions with examples: 100%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 0%

How these are measured

Downloads

3K

CRAN downloads in the past year

Rank #19,472 · ~8/day · ~248/mo

Releases R versions

Daily download trend is not available in this view yet.

25530 days

67690 days

3K1 year

Compare downloads with other packages →

Also on340 r2u1 autocran

How downloads are counted

Repository

ucl/refbasedmi ↗Organization: UCL

5Stars

4Forks

3Open issues

0Open PRs

1Releases

590Commits

5Commit identities

License file reads as GPL-3.0 · 590 commits · Last activity 2024-09-04 · 0% stars, 30d

Responsiveness

How these are sampled

PRs merged (all time): 87%
Median days to close, 50 most recently updated closed issues: not measured
Median days to close, 50 most recently updated closed PRs: 0

Stars over time

2025-04-21 · 42026-07-07 · 5

How these are measured

PracticesBeta

Checks run against github.com/ucl/refbasedmi on 2026-10-21.

No development-tooling practices detected in the upstream repository.

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

Dependencies

Declared dependencies

5 external dependencies (excludes base and recommended)

Installing RefBasedMI adds 94 packages (50 with compiled code, 77 MB of source tarballs). Heaviest: stringi 11 MB, ggplot2 6.0 MB, data.table 5.7 MB.

Depends (1)

R >= 3.5.0

Imports (5)

data.table Hmisc mice pastecs assertthat

LinkingTo (0)

none

Suggests (0)

none

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

How these are counted

Code & Tests

Datasets

People & History

People (2)

Matteo Quartagno

Maintainer · added in 0.2.0

Kevin McGrath

Author

Maintainer since 0.1.0 (2023)

Listed in earlier versions (1)

Ian White

no longer listed · 0.1.1

Releases (3)

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
unarchivedReturned to CRAN
2024-09-09
0.2.0Latest
record
2024-09-09 · current release · diff ↗
R
R 4.4.0 released · 2024-04-24
archivedRemoved from CRAN
2023-08-25
requires archived package 'norm2'
0.1.1
record
2023-08-21 · diff ↗
0.1.0
record
2023-04-27
R
R 4.3.0 released · 2023-04-21

Package metadata

First published: 2023-04-27
Total releases: 3 / 3 yrs
License: GPL-3 OSI
Minimum R: ≥ 3.5.0
Bundled data: 14 KB / 3 files
Download size: 495 KB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("RefBasedMI")

Format

Quartagno, M., & McGrath, K. (2024). RefBasedMI: Reference-Based Imputation for Longitudinal Clinical Trials with Protocol Deviation (Version 0.2.0) [Computer software]. https://doi.org/10.32614/CRAN.package.RefBasedMI

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 RefBasedMI version 0.2.0 [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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