SCBN

DOI: 10.18129/B9.bioc.SCBN    

A novel normalization method and differential expression analysis of RNA-seq d between different species

Bioconductor version: Release (3.8)

This package provides a scale based normalization (SCBN) method to identify genes with differential expression between different species. It takes into account the available knowledge of conserved orthologous genes and the hypothesis testing framework to detect differentially expressed orthologous genes. The method on this package are described in the article 'A statistical normalization method and differential expression analysis for RNA-seq data between different species' by Yan Zhou, Jiadi Zhu, Tiejun Tong, Junhui Wang, Bingqing Lin, Jun Zhang (2018, pending publication).

Author: Yan Zhou

Maintainer: Yan Zhou <2160090406 at email.szu.edu.cn>

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

Installation

To install this package, start R (version "3.5") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install("SCBN", version = "3.8")

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("SCBN")

 

HTML R Script SCBN Tutorial
PDF   Reference Manual
Text   NEWS

Details

biocViews DifferentialExpression, GeneExpression, Normalization, Software
Version 1.0.0
License GPL-2
Depends R (>= 3.5.0)
Imports stats
LinkingTo
Suggests knitr, rmarkdown
SystemRequirements
Enhances
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 SCBN_1.0.0.tar.gz
Windows Binary SCBN_1.0.0.zip
Mac OS X 10.11 (El Capitan) SCBN_1.0.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/SCBN
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/SCBN
Package Short Url http://bioconductor.org/packages/SCBN/
Package Downloads Report Download Stats

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: