R Observatory: Metrics for bidser version 0.5.2

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

bidser

0.5.2Package record

Work with 'BIDS' (Brain Imaging Data Structure) Projects

0packages depend

2.6Kdownloads / year

90.2%test coverage

13/13flavors OK

Overview

About

Maintained by Bradley BuchsbaumCRAN page ↗GitHub ↗Website ↗Issues ↗

Tools for working with 'BIDS' (Brain Imaging Data Structure) formatted neuroimaging datasets. The package provides functionality for reading and querying 'BIDS'-compliant projects, creating mock 'BIDS' datasets for testing, and extracting preprocessed data from 'fMRIPrep' derivatives. It supports searching and filtering 'BIDS' files by various entities such as subject, session, task, and run to streamline neuroimaging data workflows. See Gorgolewski et al. (2016) doi:10.1038/sdata.2016.44 for the 'BIDS' specification.

Changes in 0.5.2

Resolve raw events.tsv files through the BIDS Inheritance Principle when an exact indexed match is unavailable. The most-specific compatible event file now takes precedence, and derivative, source-data, code, and stimulus trees are excluded from raw-event discovery. read_events() preserves a literal queried session for an inherited event file that omits that entity.
Declare the R 4.1 minimum already required by the package's native-pipe syntax.

From NEWS.md in the release

Install

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

install.packages("bidser", 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/bidser")

Development version from bbuchsbaum/bidser. 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-bidser

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-bidser

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-bidser

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: 9.9 min · r-oldrel-windows-x86_64

Status changes

OK13 OK2026-08-20
ERROR12 OK, 1 ERROR2026-08-18
OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK13 OK2026-06-09

Show 2 earlier changesHide 2 earlier changes

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

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 0.5.2

READMEYes · 135 wordsVignettesYes · 4 · dynamicNEWSYes · 100% structured · mentions 0.5.2Citation fileYes · cites a publicationWebsiteYes · pkgdown

Help pages: 111 (16 internal)
Examples that run: 34%32 run in a plain check · 60 only when donttest examples are enabled (R CMD check --as-cran) · 3 never run
Exported functions with examples: 100%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 0%

Vignettes (4)

How these are measured

Downloads

2.6K

CRAN downloads in the past year

Rank #7,944 · ~7/day · ~215/mo

Releases R versions

Daily download trend is not available in this view yet.

41830 days

1.2K90 days

2.6K1 year

Compare downloads with other packages →

Also on93 r2u44 autocran

How downloads are counted

Repository

bbuchsbaum/bidser ↗Account: bbuchsbaum

6Stars

3Forks

2Open issues

5Open PRs

1Releases

325Commits

8Commit identities

325 commits · Last activity 2026-10-16 · 0% stars, 30d · Default branch at 0.5.2.9000, ahead of CRAN 0.5.2 (checked 2026-10-22)

Responsiveness

How these are sampled

PRs merged (all time): 98%
Median days to close, 50 most recently updated closed issues: 1
Median days to close, 50 most recently updated closed PRs: 0

Stars over time

2025-02-14 · 62026-07-07 · 6

How these are measured

PracticesBeta

15 development-tooling and community-health practices detected across 8 families in the upstream repository

Checks run against github.com/bbuchsbaum/bidser on 2026-10-22.

Continuous integration (2)

GitHub ActionsR CMD check workflow

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

Governance and community (1)

Contributing guide

Docs source (4)

README.Rmdpkgdown

GitHub Pages site last deployed 2026-10-16 · The repository has a site deploy workflow

pkgdown site last built 2026-10-16

Coverage (1)

Coverage reporting (Codecov)

Show all practicesHide 4 practices

Reproducibility and dev environment (1)

data-raw/

CRAN release process (1)

cran-comments.md

Research and citation (1)

codemeta.json

Lint, format, editor (4)

lintrLint workflowVS CodeRStudio project

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

AI coding toolsBeta

This repository shows signs of AI coding tools.

Cursorfirst seen 2025-04-06
Named in .Rbuildignore: .cursorrules
Named in .gitignore: .cursorrules
Pull request it wrote: opened by a project member
Commits: 2 by its own account · at least 1 crediting it in the message
Codexfirst seen 2025-05-31
Pull request it wrote: opened by a project member
Claude Codefirst seen 2025-06-01
Named in .Rbuildignore: .claude, CLAUDE.md
Named in .gitignore: CLAUDE.md
Commits: at least 34 crediting it in the message

Models named in its commits

Claude Sonnet 4.612 commits · Apr 2026
Claude Opus 4.611 commits · Feb to Mar 2026
Claude Opus 4.87 commits · Jun to Jul 2026
Claude Opus 5.51 commit · Oct 2026

Counts are commits, not lines of code. Commits by a tool's accounts count once across all of its accounts. Commits crediting it are the largest count among its credit lines, a minimum.How this is detected·Detection ruleset v4 (updated 2026-09-27)

Dependencies

Declared dependencies

34 external dependencies (excludes base and recommended)

Installing bidser adds 34 packages (20 with compiled code, 29 MB of source tarballs). Heaviest: stringi 11 MB, data.table 5.7 MB, data.tree 1.5 MB.

Depends (1)

R >= 4.1.0

Imports (12)

data.table stringr data.tree tidyselect dplyr fs jsonlite purrr readr rlang tibble tidyr

LinkingTo (0)

none

Suggests (22)

neuroim2 httr crayon stringdist ggplot2 plotly patchwork viridis scales knitr rmarkdown ragg systemfonts testthat covr lintr gluedown RNifti future future.apply pkgdown albersdown

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

How these are counted

Code & Tests

People & History

People (1)

Bradley Buchsbaum

Author, Maintainer since 0.2.0 (2026)

Releases (3)

Pick two releases to compare their code metrics.

0.5.2Latest
record
2026-09-27 · current release · diff ↗
0.5.0
record
2026-07-06 · diff ↗ ·
added 32 exports
as_bids_uri, bids_datatype_spec, bids_entities, bids_index, bids_report, bids_report_data, bids_schema, bids_schema_versions, bids_uri, bids_version, check_confounds, clean_confounds, dataset_description, dataset_name, dataset_type, derivative_files, derivative_pipelines, gen_parser, get_metadata, is_bids_uri, list_datatypes, n_volumes, query_files, read_dataset_description, read_participants, read_scans_tsv, read_sessions_tsv, register_datatype, resolve_bids_uri, sidecar and 2 more
R
R 4.6.0 released · 2026-04-24
0.2.0
record
2026-02-19
R
R 4.5.0 released · 2025-04-11

Package metadata

First published: 2026-02-19
Total releases: 3 / 1 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 4.1.0
Download size: 598 KB

Cite

Cite this package

Run in R for the authors' entry:

citation("bidser")

The package provides a citation file, so citation() returns the authors' own entry.

It points to 10.1038/sdata.2016.44.

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 bidser version 0.5.2 [Data set]. HJJB, LLC. Data release v2026-10-25. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-25, which the citation names so these numbers can be found later. More on citing and the projects behind them.

Report a problem with this page →