spqn
Bioc currentSpatial quantile normalization
Release Lineage
Entered 3.11 · Apr 28, 2020
Current · Requires R 4.6
Description
The spqn package implements spatial quantile normalization (SpQN). This method was developed to remove a mean-correlation relationship in correlation matrices built from gene expression data. It can serve as pre-processing step prior to a co-expression analysis.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
10 5 exported
Complexity
2.6 avg / 6 max
Call network
10 nodes / 7 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
763
Files
21
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
5
Internal functions
5
Testing
Has tests
Yes
Test-to-code ratio
0.01
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
Artistic-2.0
License flags
SPDX valid, OSI approved
History
Versions
13
First release
2020-04-27
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
- Help pages
- 5includes a package overview page
- Examples that run
- 100%4 run in a plain check
- Exported functions with examples
- 100%
- Documented parameters
- 100%
- Return-value docs
- 100%
- Help pages citing references
- 20%
- spqn User's Guide HTML
Repository practices
Checks run against github.com/hansenlab/spqn on 2026-10-11.
No development-tooling practices detected in the upstream repository.
Topics
People
- Yi Wang maintainer author
- Kasper Daniel Hansen author
Cite
Cite this package
Run in R for the authors' entry:
citation("spqn")The package provides a citation file, so citation() returns the authors' own entry.
It points to 10.1101/2020.02.13.944777.
Cite the R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
From data release v2026-10-18, which the citation names so these numbers can be found later. More on citing and the projects behind them.