NormalyzerDE
This is the development version of NormalyzerDE; for the stable release version, see NormalyzerDE.
Evaluation of normalization methods and calculation of differential expression analysis statistics
Bioconductor version: Development (3.19)
NormalyzerDE provides screening of normalization methods for LC-MS based expression data. It calculates a range of normalized matrices using both existing approaches and a novel time-segmented approach, calculates performance measures and generates an evaluation report. Furthermore, it provides an easy utility for Limma- or ANOVA- based differential expression analysis.
Author:
Maintainer: Jakob Willforss <jakob.willforss at hotmail.com>
citation("NormalyzerDE")
):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("NormalyzerDE")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
Reference Manual |
Details
biocViews | Bayesian, DifferentialExpression, Metabolomics, MultipleComparison, Normalization, Proteomics, Software, Visualization |
Version | 1.21.0 |
In Bioconductor since | BioC 3.8 (R-3.5) (5.5 years) |
License | Artistic-2.0 |
Depends | R (>= 4.1.0) |
Imports | vsn, preprocessCore, limma, MASS, ape, car, ggplot2, methods, Biobase, utils, stats, SummarizedExperiment, matrixStats, ggforce |
System Requirements | |
URL | https://github.com/ComputationalProteomics/NormalyzerDE |
See More
Suggests | knitr, testthat, rmarkdown, roxygen2, hexbin, BiocStyle |
Linking To | |
Enhances | |
Depends On Me | |
Imports Me | |
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Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | |
Windows Binary | |
macOS Binary (x86_64) | |
macOS Binary (arm64) | |
Source Repository | git clone https://git.bioconductor.org/packages/NormalyzerDE |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/NormalyzerDE |
Package Short Url | https://bioconductor.org/packages/NormalyzerDE/ |
Package Downloads Report | Download Stats |