REDseq
Bioc currentAnalysis of high-throughput sequencing data processed by restriction enzyme digestion
Release Lineage
Entered 2.9 · Nov 1, 2011
Current · Requires R 4.6
Description
The package includes functions to build restriction enzyme cut site (RECS) map, distribute mapped sequences on the map with five different approaches, find enriched/depleted RECSs for a sample, and identify differentially enriched/depleted RECSs between samples.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
10 8 exported
Complexity
7.5 avg / 14 max
Call network
10 nodes / 2 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
1,347
Files
34
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
8
Internal functions
1
Testing
Has tests
No
Test-to-code ratio
0.00
testthat edition
–
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
–
Unsafe pattern score
0
Dep constraint coverage
9.1%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
3.5.0
System requirements
–
C++ standard
–
License
GPL (>=2)
License flags
not SPDX, not OSI
History
Versions
30
First release
2011-10-31
Latest release
2026-04-28
Avg cadence
183 days
Cold removal rate
–
Dep drift
1
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Help pages
- 14 (2 internal)includes a package overview page
- Examples that run
- 100%14 run in a plain check (1 of them under a condition)
- Exported functions with examples
- 100%
- Documented parameters
- 99%
- Return-value docs
- 75%
- Help pages citing references
- 29%
- REDseq Vignette PDF
Repository practices
Checks read the Bioconductor git repository (git.bioconductor.org), branch RELEASE_3_23.
No development-tooling practices detected in the Bioconductor git repository.
Datasets
| Name | Class | Size | Also in |
|---|---|---|---|
| example.REDseq | – | – | – |
| example.assignedREDseq | list | 3 elements | No other package |
| example.map | – | – | – |
Topics
People (from the free-text Author field)
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("REDseq")Cite the R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
From data release v2026-10-25, which the citation names so these numbers can be found later. More on citing and the projects behind them.