MethylAid
Bioc currentVisual and interactive quality control of large Illumina DNA Methylation array data sets
Release Lineage
Entered 3.0 · Oct 14, 2014
Current · Requires R 4.6
Description
A visual and interactive web application using RStudio's shiny package. Bad quality samples are detected using sample-dependent and sample-independent controls present on the array and user adjustable thresholds. In depth exploration of bad quality samples can be performed using several interactive diagnostic plots of the quality control probes present on the array. Furthermore, the impact of any batch effect provided by the user can be explored.
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
34 1 exported
Complexity
3.2 avg / 9 max
Call network
34 nodes / 51 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
2,169
Files
38
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
2
Internal functions
33
Testing & CI
Has tests
Yes
Test-to-code ratio
0.00
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
5.9%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
3.4
System requirements
–
C++ standard
–
License
GPL (>= 2)
License flags
SPDX valid, OSI approved
History
Versions
24
First release
2015-01-05
Latest release
2026-04-28
Avg cadence
182 days
Cold removal rate
–
Dep drift
12
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
- 57%
- Return-value docs
- 100%
- References docs
- 0%
Topics
Depended on by (1)
Bioconductor (1)
People
- Maarten van Iterson maintainer
- Bas Heijmans contributor
- Rene Luijk contributor
- Roderick Slieker contributor
- Elmar Tobi contributor
- Wouter den Hollander contributor
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("MethylAid")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.