annotatr
Bioc currentAnnotation of Genomic Regions to Genomic Annotations
Release Lineage
Entered 3.4 · Oct 18, 2016
Current · Requires R 4.6
Description
Given a set of genomic sites/regions (e.g. ChIP-seq peaks, CpGs, differentially methylated CpGs or regions, SNPs, etc.) it is often of interest to investigate the intersecting genomic annotations. Such annotations include those relating to gene models (promoters, 5'UTRs, exons, introns, and 3'UTRs), CpGs (CpG islands, CpG shores, CpG shelves), or regulatory sequences such as enhancers. The annotatr package provides an easy way to summarize and visualize the intersection of genomic sites/regions with genomic annotations.
Code & tests
Open call graph →Line coverage
–
Expression
–
Tests / Examples
–
Functions
30 19 exported
Complexity
6.1 avg / 25 max
Call network
30 nodes / 29 edges
Test coverage is not measured for Bioconductor packages; nodes fall back to a neutral fill.
Lowest coverage
Per-function coverage is not measured for this package yet.
Code
Structure
Lines of code
4,930
Files
84
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
20
Internal functions
11
Recent export changes
Testing & CI
Has tests
Yes
Test-to-code ratio
0.33
testthat edition
–
CI present
Yes
CI type
["travis"]
PR gated
No
Docs
Return-value doc rate
100%
\dontrun example ratio
0%
Roxygen coverage
100%
Has pkgdown
No
NEWS present
No
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
–
Unsafe pattern score
0
Dep constraint coverage
29.4%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
3.4.0
System requirements
–
C++ standard
–
License
GPL-3
License flags
SPDX valid, OSI approved
History
Versions
20
First release
2017-02-06
Latest release
2026-04-28
Avg cadence
182 days
Cold removal rate
100%
Dep drift
16
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Topics
Depended on by (7)
People
- Raymond G. Cavalcante author maintainer
- Maureen A. Sartor ths