ballgown
Bioc currentFlexible, isoform-level differential expression analysis
Release Lineage
Entered 3.0 · Oct 14, 2014
Current · Requires R 4.6
Description
Tools for statistical analysis of assembled transcriptomes, including flexible differential expression analysis, visualization of transcript structures, and matching of assembled transcripts to annotation.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
31 20 exported
Complexity
8.6 avg / 45 max
Call network
31 nodes / 25 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
5,997
Files
193
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
40
Internal functions
11
Testing
Has tests
Yes
Test-to-code ratio
0.11
testthat edition
–
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
0%
Unsafe pattern score
29
Dep constraint coverage
45.5%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
3.1.1
System requirements
–
C++ standard
–
License
Artistic-2.0
License flags
SPDX valid, OSI approved
History
Versions
24
First release
2015-03-13
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
- 43includes a package overview page
- Examples that run
- 88%37 run in a plain check · 5 only when donttest examples are enabled (R CMD check --as-cran)
- Exported functions with examples
- 100%
- Documented parameters
- 100%
- Return-value docs
- 83%
- Help pages citing references
- 2%
Repository practices
1 development-tooling and community-health practice detected across 1 family in the upstream repository
Checks run against github.com/alyssafrazee/ballgown on 2026-10-21.
Datasets
Topics
Depended on by (2)
Suggested by (2)
People
- Alyssa C. Frazee author maintainer
- Leonardo Collado-Torres author
- Jack Fu author
- Andrew E. Jaffe author
- Jeffrey T. Leek author thesis advisor
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("ballgown")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.