This is the development version of FRASER; for the stable release version, see FRASER.
Find RAre Splicing Events in RNA-Seq DataBioconductor version: Development (3.22)
Detection of rare aberrant splicing events in transcriptome profiles. Read count ratio expectations are modeled by an autoencoder to control for confounding factors in the data. Given these expectations, the ratios are assumed to follow a beta-binomial distribution with a junction specific dispersion. Outlier events are then identified as read-count ratios that deviate significantly from this distribution. FRASER is able to detect alternative splicing, but also intron retention. The package aims to support diagnostics in the field of rare diseases where RNA-seq is performed to identify aberrant splicing defects.
Author: Christian Mertes [aut, cre] ORCID: 0000-0002-1091-205X , Ines Scheller [aut] ORCID: 0000-0003-4533-7857 , Karoline Lutz [ctb], Vicente Yepez [aut] ORCID: 0000-0001-7916-3643 , Julien Gagneur [aut] ORCID: 0000-0002-8924-8365
Maintainer: Christian Mertes <mertes at in.tum.de>
Citation (from within R, entercitation("FRASER")): 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("FRASER")
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("FRASER")Follow Installation instructions to use this package in your R session.
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