VaSP
This is the development version of VaSP; for the stable release version, see VaSP.
Quantification and Visualization of Variations of Splicing in Population
Bioconductor version: Development (3.22)
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 in a population. (Warning: The visualizing function is removed due to the dependent package Sushi deprecated. If you want to use it, please change back to an older version.)
Author: Huihui Yu [aut, cre]
, Qian Du [aut]
, Chi Zhang [aut]
Maintainer: Huihui Yu <yuhuihui2011 at foxmail.com>
citation("VaSP")):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
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")| user guide | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | AlternativeSplicing, Clustering, DifferentialExpression, DifferentialSplicing, ImmunoOncology, KEGG, Preprocessing, RNASeq, Software, StatisticalMethod, Visualization |
| Version | 1.21.0 |
| In Bioconductor since | BioC 3.12 (R-4.0) (5 years) |
| License | GPL (>= 2.0) |
| Depends | R (>= 4.0), ballgown |
| Imports | IRanges, GenomicRanges, S4Vectors, parallel, matrixStats, GenomicAlignments, GenomeInfoDb, Rsamtools, cluster, stats, graphics, methods |
| System Requirements | |
| URL | https://github.com/yuhuihui2011/VaSP |
| Bug Reports | https://github.com/yuhuihui2011/VaSP/issues |
See More
| Suggests | knitr, rmarkdown |
| 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 | VaSP_1.21.0.tar.gz |
| Windows Binary (x86_64) | VaSP_1.21.0.zip (64-bit only) |
| macOS Binary (x86_64) | VaSP_1.21.0.tgz |
| macOS Binary (arm64) | VaSP_1.21.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/VaSP |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/VaSP |
| Bioc Package Browser | https://code.bioconductor.org/browse/VaSP/ |
| Package Short Url | https://bioconductor.org/packages/VaSP/ |
| Package Downloads Report | Download Stats |