To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("phosphonormalizer")

In most cases, you don't need to download the package archive at all.

phosphonormalizer

DOI: 10.18129/B9.bioc.phosphonormalizer    

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

Compensates for the bias introduced by median normalization in phosphoproteomics

Bioconductor version: Development (3.6)

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 utu.fi>

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

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("phosphonormalizer")

Documentation

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

browseVignettes("phosphonormalizer")

 

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

Details

biocViews Normalization, Proteomics, Software, StatisticalMethod, WorkflowStep
Version 1.1.7
In Bioconductor since BioC 3.5 (R-3.4) (< 6 months)
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
Build Report  

Package Archives

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

Source Package phosphonormalizer_1.1.7.tar.gz
Windows Binary phosphonormalizer_1.1.7.zip
Mac OS X 10.11 (El Capitan) phosphonormalizer_1.1.7.tgz
Source Repository git clone https://git.bioconductor.org/packages/phosphonormalizer
Package Short Url http://bioconductor.org/packages/phosphonormalizer/
Package Downloads Report Download Stats

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