NBSplice

DOI: 10.18129/B9.bioc.NBSplice    

This package is for version 3.13 of Bioconductor; for the stable, up-to-date release version, see NBSplice.

Negative Binomial Models to detect Differential Splicing

Bioconductor version: 3.13

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>

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

Installation

To install this package, start R (version "4.1") 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 1.10.0
In Bioconductor since BioC 3.8 (R-3.5) (3 years)
License GPL (>=2)
Depends R (>= 3.5), methods
Imports edgeR, stats, MASS, car, mppa, BiocParallel, ggplot2, reshape2
LinkingTo
Suggests knitr, RUnit, BiocGenerics, BiocStyle
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_1.10.0.tar.gz
Windows Binary NBSplice_1.10.0.zip (32- & 64-bit)
macOS 10.13 (High Sierra) NBSplice_1.10.0.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 https://bioconductor.org/packages/NBSplice/
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