phosphonormalizer
This package is for version 3.7 of Bioconductor; for the stable, up-to-date release version, see phosphonormalizer.
Compensates for the bias introduced by median normalization in phosphoproteomics
Bioconductor version: 3.7
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("phosphonormalizer")
):
Installation
To install this package, start R (version "3.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("phosphonormalizer")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("phosphonormalizer")
Pairwise normalization of phosphoproteomics data | HTML | R Script |
phosphonormalizer: Phosphoproteomics Normalization | R Script | |
Reference Manual | ||
NEWS | Text |
Details
biocViews | Normalization, Proteomics, Software, StatisticalMethod, WorkflowStep |
Version | 1.4.0 |
In Bioconductor since | BioC 3.5 (R-3.4) (7 years) |
License | GPL (>= 2) |
Depends | R (>= 3.4.0) |
Imports | plyr, stats, graphics, matrixStats |
System Requirements | |
URL |
See More
Suggests | knitr, rmarkdown, testthat |
Linking To | |
Enhances | MSnbase |
Depends On Me | |
Imports Me | |
Suggests Me | |
Links To Me | |
Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | phosphonormalizer_1.4.0.tar.gz |
Windows Binary | phosphonormalizer_1.4.0.zip |
Mac OS X 10.11 (El Capitan) | phosphonormalizer_1.4.0.tgz |
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/ |
Package Downloads Report | Download Stats |
Old Source Packages for BioC 3.7 | Source Archive |