chromVAR
Bioc currentChromatin Variation Across Regions
Release Lineage
Entered 3.6 · Oct 31, 2017
Current · Requires R 4.6
Description
Determine variation in chromatin accessibility across sets of annotations or peaks. Designed primarily for single-cell or sparse chromatin accessibility data, e.g. from scATAC-seq or sparse bulk ATAC or DNAse-seq experiments.
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
133 22 exported
Complexity
3.1 avg / 15 max
Call network
133 nodes / 103 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
8,760
Files
110
Compiled share
4.5%
Has compiled src
Yes
Language breakdown
API
Exported functions
37
Internal functions
92
Recent export changes
Testing & CI
Has tests
Yes
Test-to-code ratio
0.05
testthat edition
–
CI present
Yes
CI type
["travis"]
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
3.4
System requirements
1
C++ standard
C++14
License
MIT + file LICENSE
License flags
SPDX valid, OSI approved
History
Versions
18
First release
2018-04-02
Latest release
2026-05-07
Avg cadence
182 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
- 100%
- Return-value docs
- 100%
- References docs
- 0%
Topics
Depended on by (1)
Bioconductor (1)
People
- Alicia Schep author maintainer
- Stanford University cph
- Jason Buenrostro contributor
- William Greenleaf ths
- Caleb Lareau contributor