HuBMAPR
Bioc currentInterface to 'HuBMAP'
Release Lineage
Entered 3.20 · Oct 30, 2024
Current · Requires R 4.6
Description
'HuBMAP' provides an open, global bio-molecular atlas of the human body at the cellular level. The `datasets()`, `samples()`, `donors()`, `publications()`, and `collections()` functions retrieves the information for each of these entity types. `*_details()` are available for individual entries of each entity type. `*_derived()` are available for retrieving derived datasets or samples for individual entries of each entity type. Data files can be accessed using `bulk_data_transfer()`.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
65 31 exported
Complexity
1.4 avg / 4 max
Call network
65 nodes / 109 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
5,177
Files
46
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
31
Internal functions
2
Recent export changes
Testing
Has tests
Yes
Test-to-code ratio
0.20
testthat edition
3
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
0%
Unsafe pattern score
0
Dep constraint coverage
0%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
4.4.0
System requirements
–
C++ standard
–
License
Artistic-2.0
License flags
SPDX valid, OSI approved
History
Versions
4
First release
2025-02-12
Latest release
2026-07-01
Avg cadence
133 days
Cold removal rate
100%
Dep drift
0
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Help pages
- 10
- Examples that run
- 100%10 run in a plain check
- Exported functions with examples
- 100%
- Documented parameters
- 100%
- Return-value docs
- 100%
- Help pages citing references
- 0%
Repository practices
7 development-tooling and community-health practices detected across 4 families in the upstream repository
Checks run against github.com/christinehou11/hubmapr on 2026-10-21.
The R CMD check workflow runs on Linux, macOS and Windows
GitHub Pages site last deployed 2025-06-18 · The repository has a site deploy workflow
pkgdown site last built 2025-06-18
Topics
People
- Christine Hou author maintainer
- Federico Marini author
- Martin Morgan author
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("HuBMAPR")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 v2026-10-24, which the citation names so these numbers can be found later. More on citing and the projects behind them.