DOI: 10.18129/B9.bioc.phosphonormalizer  

This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see phosphonormalizer.

Compensates for the bias introduced by median normalization in

Bioconductor version: 3.17

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 "4.3") and enter:

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


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


biocViews Normalization, Proteomics, Software, StatisticalMethod, WorkflowStep
Version 1.24.0
In Bioconductor since BioC 3.5 (R-3.4) (6.5 years)
License GPL (>= 2)
Depends R (>= 4.0)
Imports plyr, stats, graphics, matrixStats, methods
Suggests knitr, rmarkdown, testthat
Enhances MSnbase
Depends On Me
Imports Me
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