NBSplice

This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.

This package is for version 3.17 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


Bioconductor version: 3.17

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 "4.3") 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

Reference Manual PDF

Details

biocViews AlternativeSplicing, DifferentialExpression, DifferentialSplicing, ImmunoOncology, RNASeq, Regression, Software, StatisticalMethod
Version 1.18.0
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
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Suggests knitr, RUnit, BiocGenerics, BiocStyle, rmarkdown, markdown
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Package Archives

Follow Installation instructions to use this package in your R session.

Source Package
Windows Binary
macOS Binary (x86_64)
macOS Binary (arm64)
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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Old Source Packages for BioC 3.17 Source Archive