phosphonormalizer

DOI: 10.18129/B9.bioc.phosphonormalizer    

Compensates for the bias introduced by median normalization in phosphoproteomics

Bioconductor version: Release (3.12)

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, Tomi Suomi, Otto Kauko, Laura L. Elo

Maintainer: Sohrab Saraei <sohrab.saraei at blueprintgenetics.com>

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

Installation

To install this package, start R (version "4.0") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("phosphonormalizer")

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

Documentation

PDF   Reference Manual

Details

biocViews Normalization, Proteomics, Software, StatisticalMethod, WorkflowStep
Version 1.14.1
In Bioconductor since BioC 3.5 (R-3.4) (3.5 years)
License GPL (>= 2)
Depends R (>= 3.4.0)
Imports plyr, stats, graphics, matrixStats
LinkingTo
Suggests knitr, rmarkdown, testthat
SystemRequirements
Enhances MSnbase
URL
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
Windows Binary
macOS 10.13 (High Sierra)
Source Repository git clone https://git.bioconductor.org/packages/phosphonormalizer
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/phosphonormalizer
Package Short Url https://bioconductor.org/packages/phosphonormalizer/
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