biovizBase
Bioc currentBasic graphic utilities for visualization of genomic data.
Release Lineage
Entered 2.9 · Nov 1, 2011
Current · Requires R 4.6
Description
The biovizBase package is designed to provide a set of utilities, color schemes and conventions for genomic data. It serves as the base for various high-level packages for biological data visualization. This saves development effort and encourages consistency.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
73 33 exported
Complexity
3.3 avg / 33 max
Call network
73 nodes / 43 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
5,786
Files
92
Compiled share
1.5%
Has compiled src
Yes
Language breakdown
API
Exported functions
37
Internal functions
35
Testing
Has tests
Yes
Test-to-code ratio
0.00
testthat edition
–
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
66.7%
Unsafe pattern score
0
Dep constraint coverage
52.2%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
3.5.0
System requirements
–
C++ standard
–
License
Artistic-2.0
License flags
SPDX valid, OSI approved
History
Versions
30
First release
2012-01-30
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.
Documentation
- Help pages
- 40includes a package overview page
- Examples that run
- 86%30 run in a plain check · 5 never run
- Exported functions with examples
- 91%
- Documented parameters
- 97%
- Return-value docs
- 100%
- Help pages citing references
- 3%
Repository practices
Checks read the Bioconductor git repository (git.bioconductor.org), branch RELEASE_3_23.
No development-tooling practices detected in the Bioconductor git repository.
Datasets
| Name | Class | Size | Also in |
|---|---|---|---|
| crc-rearrangment | data.frame | 653 × 19 | No other package |
| crc.gr | – | – | – |
| crc1-missense | data.frame | 62 × 13 | No other package |
| crc1.GeRL | – | – | – |
| darned_hg19_subset500 | – | – | – |
| genesymbol | – | – | – |
| hg19Ideogram | – | – | – |
| hg19IdeogramCyto | – | – | – |
| hg19sub | – | – | – |
| ideo | list | 4 elements | 2 packages |
| ideoCyto | list | 4 elements | 2 packages |
| mut.gr | – | – | – |
| plink.assoc.sub | data.frame | 2,000 × 10 | No other package |
Topics
Depended on by (9)
Show all 22 packagesHide all 22 packages
Bioconductor (9)
People
- Michael Lawrence author thesis advisor maintainer
- Dianne Cook author thesis advisor
- Johannes Rainer contributor
- Tengfei Yin author
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("biovizBase")This package has no citation file, so citation() returns this entry built from DESCRIPTION.
Cite the R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
From data release v2026-10-24, which the citation names so these numbers can be found later. More on citing and the projects behind them.