Oscope
Bioc currentOscope - A statistical pipeline for identifying oscillatory genes in unsynchronized single cell RNA-seq
Release Lineage
Entered 3.2 · Oct 14, 2015
Current · Requires R 4.6
Description
Oscope is a statistical pipeline developed to identifying and recovering the base cycle profiles of oscillating genes in an unsynchronized single cell RNA-seq experiment. The Oscope pipeline includes three modules: a sine model module to search for candidate oscillator pairs; a K-medoids clustering module to cluster candidate oscillators into groups; and an extended nearest insertion module to recover the base cycle order for each oscillator group.
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
17 17 exported
Complexity
3.9 avg / 15 max
Call network
17 nodes / 12 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
5,670
Files
47
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
17
Internal functions
0
Testing & CI
Has tests
No
Test-to-code ratio
0.00
testthat edition
–
CI present
No
CI type
[]
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
–
System requirements
–
C++ standard
–
License
Artistic-2.0
License flags
SPDX valid, OSI approved
History
Versions
22
First release
2015-10-13
Latest release
2026-04-28
Avg cadence
182 days
Cold removal rate
–
Dep drift
0
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
- 84%
- Return-value docs
- 100%
- References docs
- 5%
Topics
Depended on by (1)
Bioconductor (1)
People
Ning Leng
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("Oscope")Cite the R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
From data release v2026-08-22, which the citation names so these numbers can be found later. More on citing and the projects behind them.