bedbaser
Bioc currentA BEDbase client
Release Lineage
Entered 3.21 · Apr 16, 2025
Current · Requires R 4.6
Description
A client for BEDbase. bedbaser provides access to the API at api.bedbase.org. It also includes convenience functions to import BED files into GRanges objects and BEDsets into GRangesLists.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
21 11 exported
Complexity
2.8 avg / 13 max
Call network
21 nodes / 21 edges
Test coverage is not measured for Bioconductor packages; nodes fall back to a neutral fill.
Call graph
Open call graph →Lowest coverage
Per-function coverage is not measured for this package yet.
Code
Structure
Lines of code
2,017
Files
36
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
13
Internal functions
10
Recent export changes
Testing
Has tests
Yes
Test-to-code ratio
0.31
testthat edition
3
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
–
Unsafe pattern score
0
Dep constraint coverage
5.6%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
4.5.0
System requirements
–
C++ standard
–
License
Artistic License 2.0
License flags
not SPDX, not OSI
History
Versions
3
First release
2025-10-12
Latest release
2026-09-16
Avg cadence
170 days
Cold removal rate
–
Dep drift
1
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Help pages
- 18 (1 internal)includes a package overview page
- Examples that run
- 100%16 run in a plain check
- Exported functions with examples
- 100%
- Documented parameters
- 100%
- Return-value docs
- 100%
- Help pages citing references
- 0%
- bedbaser HTML
Repository practices
5 development-tooling and community-health practices detected across 3 families in the upstream repository
Checks run against github.com/waldronlab/bedbaser on 2026-10-11.
The R CMD check workflow runs on Linux, macOS and Windows, and on R-devel
GitHub Pages site last deployed 2026-09-16 · The repository has a site deploy workflow
Topics
People
- Andres Wokaty author maintainer
-
NCI
funder
U24CA289073
- Levi Waldron author
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("bedbaser")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.
From data release v2026-10-17, which the citation names so these numbers can be found later. More on citing and the projects behind them.