NBSplice

DOI: 10.18129/B9.bioc.NBSplice    

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

Negative Binomial Models to detect Differential Splicing

Bioconductor version: 3.8

The package proposes a differential splicing evaluation method based on isoform quantification. It applies generalized linear models with negative binomial distribution to infer changes in isoform relative expression.

Author: Gabriela A. Merino and Elmer A. Fernandez

Maintainer: Gabriela Merino <merino.gabriela33 at gmail.com>

Installation

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

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

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("NBSplice")

 

HTML	R Script	NBSplice-vignette
PDF		Reference Manual
Text		NEWS

Details

biocViews	AlternativeSplicing, DifferentialExpression, DifferentialSplicing, ImmunoOncology, RNASeq, Regression, Software, StatisticalMethod
Version	1.0.6
In Bioconductor since	BioC 3.8 (R-3.5) (0.5 years)
License	GPL (>=2)
Depends	R (>= 3.5), methods
Imports	edgeR, stats, MASS, car, mppa, BiocParallel, ggplot2, reshape2
LinkingTo
Suggests	knitr, RUnit, BiocGenerics
SystemRequirements
Enhances
URL	http://www.bdmg.com.ar
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	NBSplice_1.0.6.tar.gz
Windows Binary	NBSplice_1.0.1.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan)	NBSplice_1.0.6.tgz
Source Repository	git clone https://git.bioconductor.org/packages/NBSplice
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/NBSplice
Package Short Url	http://bioconductor.org/packages/NBSplice/
Package Downloads Report	Download Stats