spqn
This is the development version of spqn; for the stable release version, see spqn.
All Bioconductor versions of spqn
3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11
Spatial quantile normalization
Bioconductor version: 3.24 · Package version: 1.25.0
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"):
Yi Wang, Kasper Daniel Hansen. spqn: Spatial quantile normalization. doi:10.18129/B9.bioc.spqn, R package version 1.25.0, https://bioconductor.org/packages/spqn.
Generated from the package metadata; it may differ from the package's own citation.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")
BiocManager::install("spqn")For older versions of R, please refer to the appropriate Bioconductor release.
Details
| Version | 1.25.0 |
| License | Artistic-2.0 |
| URL | https://github.com/hansenlab/spqn |
| Bug Reports | https://github.com/hansenlab/spqn/issues |
| Last updated | 2026-04-28 |
| In Bioconductor since | BioC 3.11 (R-4.0) (6 years) |
| Downloads rank | 1389 of 2,456 |
| Source branch | devel |
| Build report | Bioconductor build system, r-universe |
| biocViews | GraphAndNetwork, NetworkInference, Normalization, Software |
| Package Short Url | https://bioconductor.org/packages/spqn/ |
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("spqn")| Spatial quantile normalization for co-expression analysis | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Download
Follow the installation instructions to use this package in your R session.
| Source package | spqn_1.25.0.tar.gz |
| Windows binary (x86_64) | spqn_1.25.0.zip |
| macOS binary (arm64) | spqn_1.25.0.tgz |
| macOS binary (x86_64) | spqn_1.25.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/spqn |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/spqn |
| Package Downloads Report | Download Stats |
Dependencies
Depends: R (>= 4.0), ggplot2, ggridges, SummarizedExperiment, BiocGenerics
Imports: graphics, stats, utils, matrixStats
Suggests: BiocStyle, knitr, rmarkdown, tools, spqnData (>= 0.99.3), RUnit