bacon
Bioc currentControlling bias and inflation in association studies using the empirical null distribution
Release Lineage
Entered 3.3 · May 4, 2016
Current · Requires R 4.6
Description
Bacon can be used to remove inflation and bias often observed in epigenome- and transcriptome-wide association studies. To this end bacon constructs an empirical null distribution using a Gibbs Sampling algorithm by fitting a three-component normal mixture on z-scores.
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
12 4 exported
Complexity
3.6 avg / 7 max
Call network
12 nodes / 6 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
2,065
Files
36
Compiled share
8.4%
Has compiled src
Yes
Language breakdown
API
Exported functions
4
Internal functions
4
Testing & CI
Has tests
Yes
Test-to-code ratio
0.07
testthat edition
–
CI present
No
CI type
[]
PR gated
No
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
0%
Unsafe pattern score
0
Dep constraint coverage
0%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
3.3
System requirements
–
C++ standard
–
License
GPL (>= 2)
License flags
SPDX valid, OSI approved
History
Versions
21
First release
2016-08-24
Latest release
2026-04-28
Avg cadence
182 days
Cold removal rate
–
Dep drift
0
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Examples that run
- 100%
- Documented parameters
- 89%
- Return-value docs
- 100%
- References docs
- 6%
Topics
People
- Maarten van Iterson maintainer
- Erik van Zwet contributor
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("bacon")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.