NBSplice
This package is for version 3.9 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: 3.9
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("NBSplice")):
Installation
To install this package, start R (version "3.6") 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 | ||
| NEWS | Text |
Details
| biocViews | AlternativeSplicing, DifferentialExpression, DifferentialSplicing, ImmunoOncology, RNASeq, Regression, Software, StatisticalMethod |
| Version | 1.2.1 |
| 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 |
See More
| Suggests | knitr, RUnit, BiocGenerics |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | NBSplice_1.2.1.tar.gz |
| Windows Binary | NBSplice_1.2.1.zip |
| Mac OS X 10.11 (El Capitan) | NBSplice_1.2.1.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/NBSplice |
| Source Repository (Developer Access) | git clone [email protected]: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 3.9 | Source Archive |