gcapc
Bioc currentGC Aware Peak Caller
Release Lineage
Entered 3.5 · Apr 25, 2017
Current · Requires R 4.6
Description
Peak calling for ChIP-seq data with consideration of potential GC bias in sequencing reads. GC bias is first estimated with generalized linear mixture models using effective GC strategy, then applied into peak significance estimation.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
7 7 exported
Complexity
14.6 avg / 34 max
Call network
7 nodes / 0 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
2,137
Files
22
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
7
Internal functions
0
Recent export changes
Testing
Has tests
No
Test-to-code ratio
0.00
testthat edition
–
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
–
C++ standard
–
License
GPL-3
License flags
SPDX valid, OSI approved
History
Versions
19
First release
2017-06-24
Latest release
2026-04-28
Avg cadence
182 days
Cold removal rate
–
Dep drift
2
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Help pages
- 7
- Examples that run
- 100%6 run in a plain check
- Exported functions with examples
- 86%
- Documented parameters
- 86%
- Return-value docs
- 100%
- Help pages citing references
- 0%
Repository practices
Checks run against github.com/tengmx/gcapc on 2026-10-21.
No development-tooling practices detected in the upstream repository.
Topics
Suggested by (1)
People (from the free-text Author field)
Cite
Cite this package
Run in R for the authors' entry:
citation("gcapc")The package provides a citation file, so citation() returns the authors' own entry.
It points to 10.1101/gr.220673.117.
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.