neuroim2

0.13.0

Data Structures for Brain Imaging Data

1packages depend

3.5Kdownloads / year

77.0%test coverage

11/13checks pass

Overview

About

Maintained by Bradley R BuchsbaumFirst published 2025-04-103 releasesCRAN page ↗GitHub ↗

A collection of data structures and methods for handling volumetric brain imaging data, with a focus on functional magnetic resonance imaging (fMRI). Provides efficient representations for three-dimensional and four-dimensional neuroimaging data through sparse and dense array implementations, memory-mapped file access for large datasets, and spatial transformation capabilities. Implements methods for image resampling, spatial filtering, region of interest analysis, and connected component labeling. General introduction to fMRI analysis can be found in Poldrack et al. (2024, "Handbook of functional MRI data analysis", <ISBN:9781108795760>).

Install

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

install.packages("neuroim2", 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("bbuchsbaum/neuroim2")

Development version from bbuchsbaum/neuroim2. 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-neuroim2

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-neuroim2

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-neuroim2

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

Health

CRAN checks

2NOTE11OK

Failing flavors

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

Slowest check: 19.2 min · r-devel-linux-x86_64-fedora-clang

Code health

Yes

Tests · ratio 0.49

77.0%

Coverage · measured lines

100%

Documentation · exports

Dependencies · direct

Check history

NOTE2026-07-11
12 OK · 1 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
OK2026-04-25
12 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-04-17
10 OK · 3 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
NOTE2026-03-10
11 OK · 3 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMENoVignettesYes · dynamicpkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: 91%
Documented parameters: 99%
Return-value docs: 93%
References docs: 3%

Downloads

3.5K

CRAN downloads in the past year

Rank #6,668 · ~10/day · ~291/mo

Releases R versions

Daily download trend is not available in this view yet.

39730 days

1.5K90 days

3.5K1 year

Compare downloads with other packages →

Also on450 r2u31 autocran

Repository

GitHub ↗ bbuchsbaum/neuroim2

3Stars

1Forks

13Open issues

2Open PRs

1Releases

466Commits

14Contributors

neuroimagingfmrir

466 commits · Last activity 2026-07-09

Stars over time

2025-03-05 · 22026-07-07 · 3

Repository practices

Upstream repositoryBeta

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

Checks run against github.com/bbuchsbaum/neuroim2 on 2026-07-19.

Continuous integration (1)

GitHub Actions

CRAN release process (2)

cran-comments.mdCRAN-SUBMISSION

Docs source (1)

README.Rmd

Lint, format, editor (2)

VS CodeRStudio project

Show all practices

Coverage (1)

Codecov

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

Dependencies

Declared dependencies

30 external dependencies (excludes base and recommended)

Depends (2)

R >= 4.3.0Matrix

Imports (17)

purrr mmap Rcpp RcppParallel RNifti dbscan stringrmethodsbigstatsr RNiftyReg future future.apply deflist cli ggplot2 magrittrgrid

LinkingTo (3)

Rcpp RcppArmadillo RcppParallel

Suggests (12)

testthat covr knitr pkgdown roxygen2 rmarkdown albersdown Gmedian R.utils spelling vdiffr xml2

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

1direct

0indirect

bidser

Code & Tests

Code Composition

R 34,623 (63%)Rd 11,841 (22%)C++ 3,309 (6%)Vignettes 3,165 (6%)CSS 1,190 (2%)JavaScript 308 (1%)C 92 (0%)

Code characteristics

Object systems

S33S4 class55S4 generic91S4 method444

Cyclomatic complexity: 4.0 median / 36 max
Test cases: 964 / 0.49 per code line

Test coverage

Line coverage

77%

Expression

75.8%

Tests / Examples

77.0% / – ex

Functions

326 103 exported

Complexity

5.2 avg / 36 max

Call network

326 nodes / 294 edges

Call graph

Open call graph →

Loading call graph…

Lowest coverage

326 functions

Function	Cyclo	Coverage
ColumnReader exp	1	0%
cgb_filter exp	13	0%
.getAxis	1	0%
.onUnload	2	0%
.resample	1	0%
AFNIMetaInfo	9	0%

People & History

People (1)

Maintainer (1)

Bradley R Buchsbaum

Author, Maintainer, Copyright holder

Authors (1)

Bradley R Buchsbaum

Author, Maintainer, Copyright holder

Bradley R Buchsbaum

Author, Maintainer, Copyright holder

Listed in earlier versions (1)

Bradley R

no longer listed · 0.8.1 to 0.13.0

Package Timeline

3 releases. Pick two to compare their code metrics. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
0.13.0Latest
2026-04-16 · current release · diff ↗
0.8.5
2026-01-14 · diff ↗
R
R 4.5.0 released · 2025-04-11
0.8.1
2025-04-10
R
R 4.4.0 released · 2024-04-24

Package metadata

First published: 2025-04-10
Total releases: 3 / 1 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 4.3.0
Download size: 966 KB
Installed size: not tracked yet
With dependencies: not tracked yet

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