GenomicDistributions
Bioc currentGenomicDistributions: fast analysis of genomic intervals with Bioconductor
Release Lineage
Entered 3.13 · May 20, 2021
Current · Requires R 4.6
Description
If you have a set of genomic ranges, this package can help you with visualization and comparison. It produces several kinds of plots, for example: Chromosome distribution plots, which visualize how your regions are distributed over chromosomes; feature distance distribution plots, which visualizes how your regions are distributed relative to a feature of interest, like Transcription Start Sites (TSSs); genomic partition plots, which visualize how your regions overlap given genomic features such as promoters, introns, exons, or intergenic regions. It also makes it easy to compare one set of ranges to another.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
75 43 exported
Complexity
3.9 avg / 12 max
Call network
75 nodes / 112 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
7,032
Files
120
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
43
Internal functions
32
Testing
Has tests
Yes
Test-to-code ratio
0.11
testthat edition
–
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
0%
Unsafe pattern score
6
Dep constraint coverage
0%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
4.0
System requirements
–
C++ standard
–
License
BSD_2_clause + file LICENSE
License flags
SPDX valid, OSI approved
History
Versions
11
First release
2021-05-19
Latest release
2026-04-28
Avg cadence
182 days
Cold removal rate
100%
Dep drift
6
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Help pages
- 62includes a package overview page
- Examples that run
- 84%38 run in a plain check · 7 never run
- Exported functions with examples
- 100%
- Documented parameters
- 100%
- Return-value docs
- 100%
- Help pages citing references
- 0%
Repository practices
5 development-tooling and community-health practices detected across 4 families in the upstream repository
Checks run against github.com/databio/genomicdistributions on 2026-10-21.
Datasets
| Name | Class | Size | Also in |
|---|---|---|---|
| TSS_hg19 | – | – | – |
| cellTypeMetadata | data.table | 112 × 3 | No other package |
| chromSizes_hg19 | vector | 93 elements | No other package |
| exampleOpenSignalMatrix_hg19 | data.table | 100 × 14 | No other package |
| example_cell_matrix | data.frame | 100 × 14 | No other package |
| geneModels_hg19 | list | 4 elements | 2 packages |
| setB_100 | – | – | – |
| vistaEnhancers | – | – | – |
Topics
People
- Kristyna Kupkova author maintainer
- Tessa Danehy author
- John Lawson author
- Sophia Rogers author
- Nathan C. Sheffield author
- Jason Smith author
- Michal Stolarczyk author
- John Stubbs author
- Jose Verdezoto author
- Jose Verdezoto author
- Bingjie Xue author
Cite
Cite this package
Run in R for the authors' entry:
citation("GenomicDistributions")The package provides a citation file, so citation() returns the authors' own entry.
It points to 10.1186/s12864-022-08467-y.
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.