enhancerHomologSearch
Bioc currentIdentification of putative mammalian orthologs to given enhancer
Release Lineage
Entered 3.14 · Oct 27, 2021
Current · Requires R 4.6
Description
Get ENCODE data of enhancer region via H3K4me1 peaks and search homolog regions for given sequences. The candidates of enhancer homolog regions can be filtered by distance to target TSS. The top candidates from human and mouse will be aligned to each other and then exported as multiple alignments with given enhancer.
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
1726 9 exported
Complexity
6.3 avg / 38 max
Call network
1726 nodes / 1653 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
75,502
Files
363
Compiled share
96.3%
Has compiled src
Yes
Language breakdown
API
Exported functions
9
Internal functions
21
Testing & CI
Has tests
Yes
Test-to-code ratio
0.03
testthat edition
–
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
4.1.0
System requirements
–
C++ standard
–
License
GPL (>= 2)
License flags
SPDX valid, OSI approved
History
Versions
10
First release
2022-03-26
Latest release
2026-04-28
Avg cadence
181 days
Cold removal rate
–
Dep drift
3
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
- 94%
- Return-value docs
- 100%
- References docs
- 10%
Topics
People
- Jianhong Ou author maintainer
- Valentina Cigliola dtc
- Kenneth Poss fnd