vasp

DOI: 10.18129/B9.bioc.vasp    

This package is for version 3.11 of Bioconductor; for the stable, up-to-date release version, see vasp.

Quantification and Visulization of Variations of Splicing in Population

Bioconductor version: 3.11

Discovery of genome-wide variable alternative splicing events from short-read RNA-seq data and visualizations of gene splicing information for publication-quality multi-panel figures.

Author: Huihui Yu, Qian Du, Chi Zhang

Maintainer: Huihui Yu <yuhuihui2011 at foxmail.com>

Installation

To install this package, start R (version "4.0") and enter:

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

BiocManager::install("vasp")

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("vasp")

 

PDF		manual.pdf
HTML	R Script	Variations of Splicing in Population
PDF		Reference Manual
Text		NEWS

Details

biocViews	AlternativeSplicing, Clustering, DifferentialExpression, DifferentialSplicing, ImmunoOncology, KEGG, Preprocessing, RNASeq, Software, StatisticalMethod, Visualization
Version	1.0.0
In Bioconductor since	BioC 3.11 (R-4.0) (0.5 years)
License	GPL (>= 2.0)
Depends	R (>= 4.0), ballgown
Imports	IRanges, GenomicRanges, S4Vectors, Sushi, parallel, matrixStats, GenomicAlignments, GenomeInfoDb, Rsamtools, cluster, stats, graphics, methods
LinkingTo
Suggests	knitr, rmarkdown
SystemRequirements
Enhances
URL	https://github.com/yuhuihui2011/vasp
BugReports	https://github.com/yuhuihui2011/vasp/issues
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	vasp_1.0.0.tar.gz
Windows Binary	vasp_1.0.0.zip
macOS 10.13 (High Sierra)	vasp_1.0.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/vasp
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/vasp
Package Short Url	https://bioconductor.org/packages/vasp/
Package Downloads Report	Download Stats