R Observatory: Metrics for cpp11bigwig version 0.3.1

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

cpp11bigwig

0.3.1Package record

Read bigWig and bigBed Files

1packages depend

31.9Kdownloads / year

–test coverage

13/13flavors OK

Overview

About

Maintained by Jay HesselberthCRAN page ↗GitHub ↗Website ↗Issues ↗Declared funder: RNA Bioscience Initiative

Read bigWig and bigBed files using "libBigWig" https://github.com/dpryan79/libBigWig. Provides lightweight access to the binary bigWig and bigBed formats developed by the UCSC Genome Browser group.

Changes in 0.3.1

New bigbed_info() and bigwig_info() report header metadata without reading any intervals. bigbed_info() returns the field counts and embedded autoSql schema, making it possible to identify the BED variant a file holds before reading it (a genuine BED12 has defined_field_count == 12). bigwig_info() returns the version, zoom levels, chromosome count, and file-level summary statistics (min/max/mean/std).
read_bigbed() now returns all BED columns for files with no embedded autoSql schema (e.g. a bed12 written by bedToBigBed without -as). Previously such files returned only chrom/start/end; the reader now falls back to the field counts in the file header and names columns with the standard BED field names (any extra bedN+ fields become generic fieldN character columns) (#18). When a file has no embedded schema, read_bigbed() now emits a message() noting that the column names were inferred rather than declared by the file; silence it with suppressMessages().

From NEWS.md in the release

Install

R (CRAN)pak (dev)Ubuntu (r2u)

install.packages("cpp11bigwig", 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("rnabioco/cpp11bigwig")

Development version from rnabioco/cpp11bigwig. 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-cpp11bigwig

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

Health

CRAN checks

13OK

CRAN check page ↗

Slowest check: 5.7 min · r-devel-windows-x86_64

Status changes

OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK13 OK2026-06-09
NOTE12 OK, 1 NOTE2026-06-08
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 0.3.1

READMEYes · 33 wordsVignettesNoNEWSYes · 100% structured · mentions 0.3.1Citation fileNoWebsiteYes · pkgdown

Help pages: 5 (1 internal)includes a package overview page
Examples that run: 100%4 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

31.9K

CRAN downloads in the past year

Rank #2,598 · ~87/day · ~2.7K/mo

Releases R versions

Daily download trend is not available in this view yet.

1.8K30 days

5.9K90 days

31.9K1 year

Compare downloads with other packages →

Also on749 r2u

How downloads are counted

Repository

rnabioco/cpp11bigwig ↗Organization: rnabioco

4Stars

1Forks

0Open issues

0Open PRs

7Releases

107Commits

1Commit identities

107 commits · Last activity 2026-06-26 · 0% stars, 30d · Default branch at 0.3.1.9000, ahead of CRAN 0.3.1 (checked 2026-10-18)

Responsiveness

How these are sampled

PRs merged (all time): 100%
Median days to close, 50 most recently updated closed issues: 2
Median days to close, 50 most recently updated closed PRs: 0

Stars over time

2025-06-24 · 32026-07-07 · 4

How these are measured

PracticesBeta

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

Checks run against github.com/rnabioco/cpp11bigwig on 2026-10-18.

Continuous integration (2)

GitHub ActionsR CMD check workflow

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

Docs source (4)

README.Rmdpkgdown

GitHub Pages site last deployed 2026-06-26 · The repository has a site deploy workflow

pkgdown site last built 2026-06-26

Coverage (1)

Coverage reporting (Codecov)

CRAN release process (1)

cran-comments.md

Show all practicesHide 1 practice

Lint, format, editor (2)

AirVS Code

How this is detected·Detection ruleset v3 (2026-09-26)

AI coding toolsBeta

This repository shows signs of AI coding tools.

Claude Codefirst seen 2025-12-10
Seen in the repository: CLAUDE.md
Named in .Rbuildignore: .claude, CLAUDE.md
Pull request it wrote: opened by a project member
Commits: at least 14 crediting it in the message

Models named in its commits

Claude Opus 4.812 commits · Jun 2026
Claude Opus 4.52 commits · Dec 2025

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

6 external dependencies (excludes base and recommended)

Installing cpp11bigwig adds 11 packages (7 with compiled code, 4.3 MB of source tarballs). Heaviest: vctrs 1.0 MB, rlang 766 KB, cli 629 KB. 3 more not on CRAN are not measured.

Depends (0)

none

Imports (4)

GenomicRanges IRanges S4Vectors tibble

LinkingTo (1)

cpp11

Suggests (1)

testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

1direct

1indirect

Imports 1

Depends, Imports or LinkingTo, most downloaded first

valr

How these are counted

Code & Tests

People & History

People (3)

Jay Hesselberth

Author, Maintainer since 0.1.0 (2025)

RNA Bioscience Initiative

Funder, Copyright holder

Devon Ryan

Copyright holder

Releases (7)

Pick two releases to compare their code metrics.

0.3.1Latest
record
2026-06-26 · current release · diff ↗ ·
added 2 exports
bigbed_info, bigwig_info
0.3.0
record
2026-06-22 · diff ↗
0.2.0
record
2026-06-18 · diff ↗
R
R 4.6.0 released · 2026-04-24
0.1.3
record
2025-12-11 · diff ↗
0.1.2
record
2025-08-18 · diff ↗
R
R 4.5.0 released · 2025-04-11
0.1.1
record
2025-01-19 · diff ↗
0.1.0
record
2025-01-07
R
R 4.4.0 released · 2024-04-24

Package metadata

First published: 2025-01-07
Total releases: 7 / 1 yrs
License: MIT + file LICENSE OSI
Download size: 61 KB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("cpp11bigwig")

Format

Hesselberth, J., RNA Bioscience Initiative, & Ryan, D. (2026). cpp11bigwig: Read bigWig and bigBed Files (Version 0.3.1) [Computer software]. https://doi.org/10.32614/CRAN.package.cpp11bigwig

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 cpp11bigwig version 0.3.1 [Data set]. HJJB, LLC. Data release v2026-10-20. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-20, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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