DMRcaller
Bioc currentDifferentially Methylated Regions Caller
Release Lineage
Entered 3.1 · Apr 17, 2015
Current · Requires R 4.6
Description
Uses Bisulfite sequencing data in two conditions and identifies differentially methylated regions between the conditions in CG and non-CG context. The input is the CX report files produced by Bismark and the output is a list of DMRs stored as GRanges objects.
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
146 33 exported
Complexity
5.4 avg / 110 max
Call network
146 nodes / 313 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
18,137
Files
89
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
33
Internal functions
102
Recent export changes
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
0%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
3.5
System requirements
–
C++ standard
–
License
GPL-3
License flags
SPDX valid, OSI approved
History
Versions
23
First release
2015-04-16
Latest release
2026-04-28
Avg cadence
182 days
Cold removal rate
–
Dep drift
17
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Examples that run
- 77%
- Documented parameters
- 99%
- Return-value docs
- 100%
- References docs
- 0%
Topics
People
- Nicolae Radu Zabet author maintainer
- Alessandro Greco author
- Young Jun Kim author
- Ryan Merritt author
- Jonathan Tsang author