GEOquery
Bioc currentGet data from NCBI Gene Expression Omnibus (GEO)
Release Lineage
Entered 1.8 · Apr 27, 2006
Current · Requires R 4.6
Description
The NCBI Gene Expression Omnibus (GEO) is a public repository of microarray data. Given the rich and varied nature of this resource, it is only natural to want to apply BioConductor tools to these data. GEOquery is the bridge between GEO and BioConductor.
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
55 17 exported
Complexity
3 avg / 11 max
Call network
55 nodes / 62 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
3,968
Files
87
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
17
Internal functions
38
Recent export changes
Testing & CI
Has tests
Yes
Test-to-code ratio
0.18
testthat edition
–
CI present
Yes
CI type
["github-actions"]
PR gated
Yes
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
0%
Unsafe pattern score
0
Dep constraint coverage
5.9%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
–
System requirements
–
C++ standard
–
License
MIT + file LICENSE
License flags
SPDX valid, OSI approved
History
Versions
41
First release
2006-09-07
Latest release
2026-04-28
Avg cadence
181 days
Cold removal rate
100%
Dep drift
22
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Examples that run
- 80%
- Documented parameters
- 100%
- Return-value docs
- 81%
- References docs
- 6%
Topics
Depended on by (90)
Bioconductor (76)
People
- Sean Davis author maintainer
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("GEOquery")This is what citation() produces when a package has no citation file of its own. If it prints something else, use that.
Cite the R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
From data release v2026-08-22, which the citation names so these numbers can be found later. More on citing and the projects behind them.