oligoClasses
Bioc currentClasses for high-throughput arrays supported by oligo and crlmm
Release Lineage
Entered 2.1 · Oct 8, 2007
Current · Requires R 4.6
Description
This package contains class definitions, validity checks, and initialization methods for classes used by the oligo and crlmm packages.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
67 39 exported
Complexity
2.6 avg / 14 max
Call network
67 nodes / 46 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
7,480
Files
129
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
40
Internal functions
28
Testing
Has tests
Yes
Test-to-code ratio
0.01
testthat edition
–
Docs
Roxygen coverage
97.5%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
0%
Unsafe pattern score
0
Dep constraint coverage
43.8%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
2.14
System requirements
–
C++ standard
–
License
GPL (>= 2)
License flags
SPDX valid, OSI approved
History
Versions
38
First release
2007-10-09
Latest release
2026-04-28
Avg cadence
183 days
Cold removal rate
100%
Dep drift
19
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Help pages
- 79 (1 internal)
- Examples that run
- 92%48 run in a plain check · 3 never run · 1 hold no code
- Exported functions with examples
- 78%
- Documented parameters
- 99%
- Return-value docs
- 85%
- Help pages citing references
- 0%
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 |
|---|---|---|---|
| efsExample | – | – | – |
| gap_hg18 | – | – | – |
| gap_hg19 | – | – | – |
| genomeAnnotatedDataFrameExample | – | – | – |
| locusLevelData | list | 5 elements | No other package |
| oligoSet | – | – | – |
| scqsExample | – | – | – |
| seqlengths | vector | 49 elements | No other package |
| sfsExample | – | – | – |
| sqsExample | – | – | – |
Topics
Depended on by (187)
Show 35 packagesHide 35 packages
Bioconductor (187)
Suggested by (5)
People (from the free-text Author field)
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("oligoClasses")Cite the R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
From data release v2026-10-19, which the citation names so these numbers can be found later. More on citing and the projects behind them.