banffIT

2.0.0

Automated Standardized Assignment of the Banff Classification

0packages depend

2.6Kdownloads / year

0.0%test coverage

12/13checks pass

Overview

About

Maintained by Guillaume FabreFirst published 2024-05-082 releasesCRAN page ↗GitHub ↗

Assigns standardized diagnoses using the Banff Classification (Category 1 to 6 diagnoses, including Acute and Chronic active T-cell mediated rejection as well as Active, Chronic active, and Chronic antibody mediated rejection). The main function considers a minimal dataset containing biopsies information in a specific format (described by a data dictionary), verifies its content and format (based on the data dictionary), assigns diagnoses, and creates a summary report. The package is developed on the reference guide to the Banff classification of renal allograft pathology Roufosse C, Simmonds N, Clahsen-van Groningen M, et al. A (2018) doi:10.1097/TP.0000000000002366. The full description of the Banff classification is available at https://banfffoundation.org/.

Install

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

install.packages("banffIT", 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("PersonalizedTransplantCare/banffIT")

Development version from PersonalizedTransplantCare/banffIT. 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-banffit

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-banffIT

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-banffIT

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

Health

CRAN checks

1NOTE12OK

Failing flavors

NOTE r-devel-linux-x86_64-debian-gcc

Slowest check: 2.3 min · r-devel-linux-x86_64-fedora-clang

Code health

Yes

Tests · ratio 0.64

0.0%

Coverage · measured lines

100%

Documentation · exports

Dependencies · direct

Check history

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
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 333 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 100%
Return-value docs: 82%
References docs: 0%

Downloads

2.6K

CRAN downloads in the past year

Rank #15,907 · ~7/day · ~220/mo

Releases R versions

Daily download trend is not available in this view yet.

22830 days

66590 days

2.6K1 year

Compare downloads with other packages →

Also on122 r2u12 autocran

Repository

GitHub ↗ personalizedtransplantcare/banffit

0Stars

1Forks

0Open issues

0Open PRs

2Releases

47Commits

2Contributors

47 commits · Last activity 2025-10-06

Forks over time

2024-07-31 · 12026-07-07 · 1

Repository practices

Upstream repositoryBeta

3 development-tooling and community-health practices detected across 3 families in the upstream repository

Checks run against github.com/personalizedtransplantcare/banffit on 2026-08-02.

Continuous integration (1)

GitHub Actions

Reproducibility and dev environment (1)

data-raw/

CRAN release process (1)

cran-comments.md

How this is detected·Detection ruleset v1 (2026-07-18)

Dependencies

Declared dependencies

12 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.4

Imports (11)

dplyr rlangtoolsutilscrayon stringr fs lubridate tidyr fabR madshapR

LinkingTo (0)

none

Suggests (3)

knitr rmarkdown usethis

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

People & History

People (7)

Maintainer (1)

Guillaume Fabre

Author, Maintainer

Authors (1)

Guillaume Fabre

Author, Maintainer

Contributors (6)

Jan Ulrich Becker

Contributor · added in 2.0.0

Samuel El Bouzaïdi Tiali

Contributor

Edden Gitelman

Contributor · added in 2.0.0

Jérôme Laforme

Contributor

Ruth Sapir-Pichhadze

Funder, Copyright holder, Contributor

Tina Wey

Contributor

Ruth Sapir-Pichhadze

Funder, Copyright holder, Contributor

Funders (1)

Ruth Sapir-Pichhadze

Funder, Copyright holder, Contributor

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
2.0.0Latest
2025-07-05 · current release · diff ↗
R
R 4.5.0 released · 2025-04-11
1.0.0
2024-05-08
R
R 4.4.0 released · 2024-04-24

Package metadata

First published: 2024-05-08
Total releases: 2 / 2 yrs
License: GPL-3 OSI
Minimum R: ≥ 3.4
Download size: 212 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Report a problem with this page →