beadarray
Bioc currentQuality assessment and low-level analysis for Illumina BeadArray data
Release Lineage
Entered 1.8 · Apr 27, 2006
Current · Requires R 4.6
Description
The package is able to read bead-level data (raw TIFFs and text files) output by BeadScan as well as bead-summary data from BeadStudio. Methods for quality assessment and low-level analysis are provided.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
164 70 exported
Complexity
6.3 avg / 54 max
Call network
164 nodes / 174 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
14,530
Files
161
Compiled share
10.2%
Has compiled src
Yes
Language breakdown
API
Exported functions
69
Internal functions
59
Testing
Has tests
No
Test-to-code ratio
0.00
testthat edition
–
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
0%
Unsafe pattern score
2
Dep constraint coverage
16.7%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
3.5.0
System requirements
–
C++ standard
–
License
MIT + file LICENSE
License flags
SPDX valid, OSI approved
History
Versions
41
First release
2006-04-25
Latest release
2026-08-31
Avg cadence
182 days
Cold removal rate
100%
Dep drift
24
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Help pages
- 70includes a package overview page
- Examples that run
- 74%37 run in a plain check · 10 never run · 3 hold no code
- Exported functions with examples
- 78%
- Documented parameters
- 96%
- Return-value docs
- 85%
- Help pages citing references
- 17%
Repository practices
Checks read the Bioconductor git repository (git.bioconductor.org), branch RELEASE_3_23.
No development-tooling practices detected in the Bioconductor git repository.
Datasets
| Name | Class | Size | Also in |
|---|---|---|---|
| gse_fallback | – | – | – |
| metaTemplate | list | 3 elements | No other package |
| platformSigs | list | 23 elements | No other package |
Topics
Depended on by (5)
Bioconductor (5)
Suggested by (4)
People (from the free-text Author field)
Cite
Cite this package
Run in R for the authors' entry:
citation("beadarray")The package provides a citation file, so citation() returns the authors' own entry.
Cite the R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
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.