orthogene
Bioc currentGene mapping made easy
Release Lineage
Entered 3.14 · Oct 27, 2021
Current · Requires R 4.6
Description
`orthogene` is an R package for easy mapping of orthologous genes across hundreds of species. It pulls up-to-date gene ortholog mappings across **700+ organisms**. It also provides various utility functions to aggregate/expand common objects (e.g. data.frames, gene expression matrices, lists) using **1:1**, **many:1**, **1:many** or **many:many** gene mappings, both within- and between-species.
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
96 14 exported
Complexity
4.3 avg / 25 max
Call network
96 nodes / 220 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
9,902
Files
209
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
14
Internal functions
82
Testing & CI
Has tests
Yes
Test-to-code ratio
0.18
testthat edition
3
CI present
Yes
CI type
["github-actions"]
PR gated
Yes
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
4.5.0
System requirements
–
C++ standard
–
License
GPL-3
License flags
SPDX valid, OSI approved
History
Versions
10
First release
2022-04-08
Latest release
2026-04-29
Avg cadence
177 days
Cold removal rate
–
Dep drift
6
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
- 95%
- Return-value docs
- 100%
- References docs
- 0%
Topics
Depended on by (3)
Bioconductor (3)
People
- Brian Schilder maintainer fnd
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("orthogene")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 v2026-08-22, which the citation names so these numbers can be found later. More on citing and the projects behind them.