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Compensates for the bias introduced by median normalization in

Bioconductor version: Release (3.19)

It uses the overlap between enriched and non-enriched datasets to compensate for the bias introduced in global phosphorylation after applying median normalization.

Author: Sohrab Saraei [aut, cre], Tomi Suomi [ctb], Otto Kauko [ctb], Laura Elo [ths]

Maintainer: Sohrab Saraei <sohrab.saraei at>

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


To install this package, start R (version "4.4") and enter:

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


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:

Pairwise normalization of phosphoproteomics data HTML R Script
phosphonormalizer: Phosphoproteomics Normalization PDF R Script
Reference Manual PDF


biocViews Normalization, Proteomics, Software, StatisticalMethod, WorkflowStep
Version 1.28.0
In Bioconductor since BioC 3.5 (R-3.4) (7 years)
License GPL (>= 2)
Depends R (>= 4.0)
Imports plyr, stats, graphics, matrixStats, methods
System Requirements
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Suggests knitr, rmarkdown, testthat
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Enhances MSnbase
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Follow Installation instructions to use this package in your R session.

Source Package phosphonormalizer_1.28.0.tar.gz
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macOS Binary (x86_64) phosphonormalizer_1.28.0.tgz
macOS Binary (arm64) phosphonormalizer_1.28.0.tgz
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