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VaSP

Quantification and Visualization of Variations of Splicing in Population

Bioconductor version: 3.23 · Package version: 1.24.0

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.)

Installation

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

BiocManager::install("VaSP")

Details

MaintainerHuihui Yu <yuhuihui2011@foxmail.com>
AuthorHuihui Yu [aut, cre] (ORCID: <https://orcid.org/0000-0003-2725-1937>), Qian Du [aut] (ORCID: <https://orcid.org/0000-0003-3864-8745>), Chi Zhang [aut] (ORCID: <https://orcid.org/0000-0002-1827-8137>)
LicenseGPL (>= 2.0)
URLhttps://github.com/yuhuihui2011/VaSP
Bug Reportshttps://github.com/yuhuihui2011/VaSP/issues
Downloads rank308
Source branchRELEASE_3_23
biocViewsAlternativeSplicing, Clustering, DifferentialExpression, DifferentialSplicing, ImmunoOncology, KEGG, Preprocessing, RNASeq, Software, StatisticalMethod, Visualization

Documentation

Download

Dependencies

Depends: R (>= 4.0), ballgown

Imports: IRanges, GenomicRanges, S4Vectors, parallel, matrixStats, GenomicAlignments, GenomeInfoDb, Rsamtools, cluster, stats, graphics, methods

Suggests: knitr, rmarkdown