This is the development version of OutSplice; for the stable release version, see OutSplice.
Comparison of Splicing Events between Tumor and Normal SamplesBioconductor version: Development (3.22)
An easy to use tool that can compare splicing events in tumor and normal tissue samples using either a user generated matrix, or data from The Cancer Genome Atlas (TCGA). This package generates a matrix of splicing outliers that are significantly over or underexpressed in tumors samples compared to normal denoted by chromosome location. The package also will calculate the splicing burden in each tumor and characterize the types of splicing events that occur.
Author: Joseph Bendik [aut] ORCID: 0000-0003-0877-5639 , Sandhya Kalavacherla [aut] ORCID: 0000-0003-0485-9042 , Michael Considine [aut] ORCID: 0000-0002-8666-4857 , Bahman Afsari [aut] ORCID: 0000-0001-8717-7199 , Michael F. Ochs [aut], Joseph Califano [aut] ORCID: 0000-0002-4715-6761 , Daria A. Gaykalova [aut] ORCID: 0000-0001-5037-0147 , Elana Fertig [aut] ORCID: 0000-0003-3204-342X , Theresa Guo [cre, aut] ORCID: 0000-0002-1689-3275
Maintainer: Theresa Guo <twguo at health.ucsd.edu>
Citation (from within R, entercitation("OutSplice")): 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("OutSplice")
For older versions of R, please refer to the appropriate Bioconductor release.
DocumentationTo view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("OutSplice")Follow Installation instructions to use this package in your R session.
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