GenomAutomorphism
Bioc currentCompute the automorphisms between DNA's Abelian group representations
Release Lineage
Entered 3.16 · Nov 2, 2022
Current · Requires R 4.6
Description
This is a R package to compute the automorphisms between pairwise aligned DNA sequences represented as elements from a Genomic Abelian group. In a general scenario, from genomic regions till the whole genomes from a given population (from any species or close related species) can be algebraically represented as a direct sum of cyclic groups or more specifically Abelian p-groups. Basically, we propose the representation of multiple sequence alignments of length N bp as element of a finite Abelian group created by the direct sum of homocyclic Abelian group of prime-power order.
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
49 17 exported
Complexity
5.1 avg / 12 max
Call network
49 nodes / 30 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
16,203
Files
205
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
77
Internal functions
32
Recent export changes
Testing & CI
Has tests
Yes
Test-to-code ratio
0.03
testthat edition
3
CI present
No
CI type
[]
PR gated
No
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
–
Unsafe pattern score
0
Dep constraint coverage
0%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
4.4.0
System requirements
–
C++ standard
–
License
Artistic-2.0
License flags
SPDX valid, OSI approved
History
Versions
8
First release
2023-02-24
Latest release
2026-04-28
Avg cadence
182 days
Cold removal rate
–
Dep drift
4
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
- 68%
- Return-value docs
- 98%
- References docs
- 18%
Topics
People
- Robersy Sanchez author maintainer
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("GenomAutomorphism")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.