This site is a development preview. As such the content and styling may not be final and is subject to change before going into production. To see more information about the redesign click here.

ExpressionNormalizationWorkflow

Gene Expression Normalization Workflow

Bioconductor version: Release (3.17)

An extensive, customized expression normalization workflow incorporating Supervised Normalization of Microarryas(SNM), Surrogate Variable Analysis(SVA) and Principal Variance Component Analysis to identify batch effects and remove them from the expression data to enhance the ability to detect the underlying biological signals.

Author: Karthikeyan Murugesan [aut, cre], Greg Gibson [sad, ths]

Maintainer: Karthikeyan Murugesan <karthikeyanm60 at yahoo.com>

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

Installation

To install this package, start R (version "4.3") and enter:

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

BiocManager::install("ExpressionNormalizationWorkflow")

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("ExpressionNormalizationWorkflow")
Gene Expression Normalization Workflow HTML R Script

Details

biocViews GeneExpressionWorkflow, ImmunoOncologyWorkflow, Workflow
Version 1.26.0
License GPL (>=3)
Depends
Imports Biobase(>= 2.24.0), limma(>= 3.20.9), lme4 (>= 1.1.7), matrixStats (>= 0.10.3), pvca(>= 1.4.0), snm(>= 1.12.0), sva(>= 3.10.0), vsn(>= 3.32.0)
Linking To
Suggests knitr, BiocStyle
System Requirements
Enhances
URL
Bug Reports https://github.com/
See More
Depends On Me
Imports Me
Suggests Me
Links To Me

Package Archives

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

Source Package ExpressionNormalizationWorkflow_1.26.0.tar.gz
Windows Binary
macOS Binary (x86_64)
macOS Binary (arm64)
Source Repository git clone https://git.bioconductor.org/packages/ExpressionNormalizationWorkflow
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/ExpressionNormalizationWorkflow
Package Short Url https://bioconductor.org/packages/ExpressionNormalizationWorkflow/
Package Downloads Report Download Stats