NBSplice

This package is for version 3.13 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see NBSplice.

Negative Binomial Models to detect Differential Splicing

DOI: 10.18129/B9.bioc.NBSplice

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 (!require("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")

NBSplice-vignette HTML R Script

Reference Manual PDF

NEWS Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews AlternativeSplicing, DifferentialExpression, DifferentialSplicing, ImmunoOncology, RNASeq, Regression, Software, StatisticalMethod

Version 1.10.0

In Bioconductor since BioC 3.8 (R-3.5) (5.5 years)

License GPL (>=2)

Depends R (>= 3.5), methods

Imports edgeR, stats, MASS, car, mppa, BiocParallel, ggplot2, reshape2

System Requirements

URL http://www.bdmg.com.ar

Suggests knitr, RUnit, BiocGenerics, BiocStyle

Linking To

Enhances

Depends On Me

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Build Report 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

Bioc Package Browser https://code.bioconductor.org/browse/NBSplice/

Package Short Url https://bioconductor.org/packages/NBSplice/

Package Downloads Report Download Stats

Old Source Packages for BioC 3.13 Source Archive