SCBN

DOI: 10.18129/B9.bioc.SCBN    

This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see SCBN.

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

Bioconductor version: 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>

Installation

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

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

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
In Bioconductor since	BioC 3.8 (R-3.5) (0.5 years)
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 (32- & 64-bit)
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