ribosomeProfilingQC
Bioc currentRibosome Profiling Quality Control
Release Lineage
Entered 3.11 · Apr 28, 2020
Current · Requires R 4.6
Description
Ribo-Seq (also named ribosome profiling or footprinting) measures translatome (unlike RNA-Seq, which sequences the transcriptome) by direct quantification of the ribosome-protected fragments (RPFs). This package provides the tools for quality assessment of ribosome profiling. In addition, it can preprocess Ribo-Seq data for subsequent differential analysis.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
48 35 exported
Complexity
6.5 avg / 28 max
Call network
48 nodes / 41 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
6,540
Files
116
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
35
Internal functions
13
Recent export changes
Testing
Has tests
Yes
Test-to-code ratio
0.08
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
4.0
System requirements
–
C++ standard
–
License
GPL (>=3) + file LICENSE
License flags
not SPDX, not OSI
History
Versions
13
First release
2020-08-05
Latest release
2026-04-28
Avg cadence
178 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
- Help pages
- 36
- Examples that run
- 83%30 run in a plain check · 6 never run
- Exported functions with examples
- 100%
- Documented parameters
- 79%
- Return-value docs
- 100%
- Help pages citing references
- 8%
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 |
|---|---|---|---|
| CDS | – | – | – |
| cnts | list | 3 elements | No other package |
| danrer10.annotations | list | 5 elements | No other package |
| samplePc | – | – | – |
Topics
People
- Jianhong Ou author maintainer
- Mariah Hoye author
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("ribosomeProfilingQC")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 v2026-10-25, which the citation names so these numbers can be found later. More on citing and the projects behind them.