GSCA
Bioc currentGSCA: Gene Set Context Analysis
Release Lineage
Entered 2.14 · Apr 14, 2014
Current · Requires R 4.6
Description
GSCA takes as input several lists of activated and repressed genes. GSCA then searches through a compendium of publicly available gene expression profiles for biological contexts that are enriched with a specified pattern of gene expression. GSCA provides both traditional R functions and interactive, user-friendly user interface.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
7 7 exported
Complexity
19 avg / 51 max
Call network
7 nodes / 2 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
1,529
Files
36
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
7
Internal functions
0
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
12
Dep constraint coverage
0%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
2.10.0
System requirements
–
C++ standard
–
License
GPL(>=2)
License flags
not SPDX, not OSI
History
Versions
25
First release
2014-05-09
Latest release
2026-04-28
Avg cadence
182 days
Cold removal rate
–
Dep drift
2
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Help pages
- 11includes a package overview page
- Examples that run
- 90%9 run in a plain check · 1 never run
- Exported functions with examples
- 100%
- Documented parameters
- 100%
- Return-value docs
- 100%
- Help pages citing references
- 100%
- GSCA PDF
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 |
|---|---|---|---|
| GSM288346_ES_Oct4 | data.frame | 3,759 × 6 | No other package |
| Oct4ESC_TG | list | 2 elements | No other package |
| Pou5f1_E14TG2a_GSE4189_Limma | data.frame | 16,019 × 8 | No other package |
| STAT1_TG | vector | 23 elements | No other package |
| allreffile | list | 4 elements | No other package |
| geneIDdata | data.frame | 17,355 × 5 | No other package |
Topics
People (from the free-text Author field)
Cite
Cite this package
Run in R for the authors' entry:
citation("GSCA")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 v2026-10-22, which the citation names so these numbers can be found later. More on citing and the projects behind them.