R Observatory: Metrics for MEAL version 1.42.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

MEAL

Bioc current

Perform methylation analysis

v1.42.0 · Package record · software · Artistic-2.0

View on Bioconductor ↗ Source ↗

Release Lineage

Entered 3.2 · Oct 14, 2015

Current · Requires R 4.6

1.0 In 22 of 49 releases 3.23

Description

Package to integrate methylation and expression data. It can also perform methylation or expression analysis alone. Several plotting functionalities are included as well as a new region analysis based on redundancy analysis. Effect of SNPs on a region can also be estimated.

Advisories

None published for Bioconductor

Test coverage

Line coverage

–

Expression

–

Tests / Examples

–

Functions

24 18 exported

Complexity

7.1 avg / 19 max

Call network

24 nodes / 15 edges

Test coverage is not measured for Bioconductor packages; nodes fall back to a neutral fill.

Call graph

Open call graph →

Loading call graph…

Lowest coverage

Per-function coverage is not measured for this package yet.

How coverage is measured·How the call graph is built

Code

Structure

Lines of code

6,287

Files

62

Compiled share

0%

Has compiled src

No

Language breakdown

R 1,659 (26.4%)Tests 435 (6.9%)Docs 926 (14.7%)Vignettes 3,267 (52%)

API

Exported functions

18

Internal functions

6

Recent export changes

v3.8−12 DAPipeline, DAProbe, DARegion 9 more

v3.6+11 filterResults, getProbeResults, getRDAresults +8 more −22 RDAPval, blocks, bumps 19 more

Testing

Has tests

Yes

Test-to-code ratio

0.26

testthat edition

–

Docs

Roxygen coverage

100%

Health & Security signals

Informational signals; not verdicts.

on.exit coverage

–

Unsafe pattern score

0

Dep constraint coverage

4.5%

Secret pattern count

0

Bundled 3rd-party code

2 items

Portability & License

Min R version

3.6.0

System requirements

–

C++ standard

–

License

Artistic-2.0

License flags

SPDX valid, OSI approved

History

Versions

22

First release

2016-04-21

Latest release

2026-04-28

Avg cadence

182 days

Cold removal rate

100%

Dep drift

16

LOC over versions

Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.

Documentation

In the Bioconductor 3.23 release

READMENoVignettesYes · 2 · dynamicNEWSYes · 0% structuredCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 21includes a package overview page
Examples that run: 90%9 run in a plain check · 1 never run
Exported functions with examples: 56%
Documented parameters: 98%
Return-value docs: 100%
Help pages citing references: 0%

Vignettes (2)

How these are measured

Repository practices

Bioconductor git repository

Checks read the Bioconductor git repository (git.bioconductor.org), branch RELEASE_3_23.

No development-tooling practices detected in the Bioconductor git repository.

How this is detected

Topics

Software › AssayDomain › DNAMethylation

Software › Technology › Microarray

Software

Software › Technology › Sequencing › WholeGenome

Maintainer: Xavier Escribà Montagut

Available on

CRANr2uBioconductorautoCRANCOPR

People

Carlos Ruiz-Arenas author maintainer
Juan R. Gonzalez author

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("MEAL")

Format

Ruiz-Arenas, C., & Gonzalez, J. R. (2026). MEAL: Perform methylation analysis (Version 1.42.0) [Computer software]. https://bioconductor.org/packages/MEAL

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.

Format

APA

Balamuta, J. J. (2026). R Observatory: Metrics for MEAL version 1.42.0 [Data set]. HJJB, LLC. Data release v2026-10-21. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-21, which the citation names so these numbers can be found later. More on citing and the projects behind them.

Report a problem with this page →