Release Lineage
Entered 3.15 · Apr 27, 2022
Current · Requires R 4.6
Description
APL is a package developed for computation of Association Plots (AP), a method for visualization and analysis of single cell transcriptomics data. The main focus of APL is the identification of genes characteristic for individual clusters of cells from input data. The package performs correspondence analysis (CA) and allows to identify cluster-specific genes using Association Plots. Additionally, APL computes the cluster-specificity scores for all genes which allows to rank the genes by their specificity for a selected cell cluster of interest.
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
30 14 exported
Complexity
8.7 avg / 34 max
Call network
30 nodes / 38 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
8,785
Files
81
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
21
Internal functions
16
Recent export changes
Testing & CI
Has tests
Yes
Test-to-code ratio
0.10
testthat edition
3
CI present
Yes
CI type
["github-actions"]
PR gated
Yes
Docs
Roxygen coverage
95.2%
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
4.4.0
System requirements
–
C++ standard
–
License
GPL (>= 3)
License flags
SPDX valid, OSI approved
History
Versions
9
First release
2022-10-15
Latest release
2026-04-28
Avg cadence
178 days
Cold removal rate
–
Dep drift
5
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
- 27%
Topics
People
- Clemens Kohl maintainer author
- Elzbieta Gralinska author
- Martin Vingron author
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("APL")This is what citation() produces when a package has no citation file of its own. If it prints something else, use that.
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.