methrix
Bioc currentFast and efficient summarization of generic bedGraph files from Bisufite sequencing
Release Lineage
Entered 3.10 · Oct 30, 2019
Current · Requires R 4.6
Description
Bedgraph files generated by Bisulfite pipelines often come in various flavors. Critical downstream step requires summarization of these files into methylation/coverage matrices. This step of data aggregation is done by Methrix, including many other useful downstream functions.
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
43 27 exported
Complexity
8.4 avg / 28 max
Call network
43 nodes / 44 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
4,845
Files
74
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
27
Internal functions
16
Testing & CI
Has tests
Yes
Test-to-code ratio
0.09
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
3
Dep constraint coverage
5.9%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
3.6
System requirements
–
C++ standard
–
License
MIT + file LICENSE
License flags
SPDX valid, OSI approved
History
Versions
14
First release
2020-01-08
Latest release
2026-04-28
Avg cadence
182 days
Cold removal rate
–
Dep drift
5
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Examples that run
- 85%
- Documented parameters
- 100%
- Return-value docs
- 96%
- References docs
- 3%
Topics
Depended on by (1)
CRAN (1)
People
- Anand Mayakonda author maintainer
- Rajbir Batra contributor
- Clarissa Feuerstein-Akgöz contributor
- Joschka Hey contributor
- Pavlo Lutsik contributor
- Maximilian Schönung contributor
- Reka Toth author
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("methrix")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 v2026-08-23, which the citation names so these numbers can be found later. More on citing and the projects behind them.