DOI: 10.18129/B9.bioc.spqn  

This is the development version of spqn; for the stable release version, see spqn.

Spatial quantile normalization

Bioconductor version: Development (3.18)

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.

Author: Yi Wang [cre, aut], Kasper Daniel Hansen [aut]

Maintainer: Yi Wang <yiwangthu5 at gmail.com>

Citation (from within R, enter citation("spqn")):


To install this package, start R (version "4.3") and enter:

if (!require("BiocManager", quietly = TRUE))

# The following initializes usage of Bioc devel


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:



HTML R Script spqn User's Guide
PDF   Reference Manual
Text   NEWS


biocViews GraphAndNetwork, NetworkInference, Normalization, Software
Version 1.13.0
In Bioconductor since BioC 3.11 (R-4.0) (3 years)
License Artistic-2.0
Depends R (>= 4.0), ggplot2, ggridges, SummarizedExperiment, BiocGenerics
Imports graphics, stats, utils, matrixStats
Suggests BiocStyle, knitr, rmarkdown, tools, spqnData(>= 0.99.3), RUnit
URL https://github.com/hansenlab/spqn
BugReports https://github.com/hansenlab/spqn/issues
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package spqn_1.13.0.tar.gz
Windows Binary spqn_1.13.0.zip (64-bit only)
macOS Binary (x86_64) spqn_1.13.0.tgz
macOS Binary (arm64)
Source Repository git clone https://git.bioconductor.org/packages/spqn
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/spqn
Bioc Package Browser https://code.bioconductor.org/browse/spqn/
Package Short Url https://bioconductor.org/packages/spqn/
Package Downloads Report Download Stats

Documentation »


R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: