Package: satuRn
Type: Package
Title: Scalable Analysis of Differential Transcript Usage for Bulk and
        Single-Cell RNA-sequencing Applications
Date: 2022-08-05
Version: 1.18.0
Authors@R: c(person("Jeroen", "Gilis", role = c("aut","cre"),
                     email = "jeroen.gilis@ugent.be"),
             person("Kristoffer", "Vitting-Seerup", role = "ctb",
                     email = "kristoffer.vittingseerup@bio.ku.dk"),
	     person("Koen","Van den Berge", role = "ctb",
		     email = "koen.vandenberge@ugent.be"),
	     person("Lieven","Clement", role="ctb",
		     email = "Lieven.Clement@ugent.be"))
Description: satuRn provides a higly performant and scalable framework
        for performing differential transcript usage analyses. The
        package consists of three main functions. The first function,
        fitDTU, fits quasi-binomial generalized linear models that
        model transcript usage in different groups of interest. The
        second function, testDTU, tests for differential usage of
        transcripts between groups of interest. Finally, plotDTU
        visualizes the usage profiles of transcripts in groups of
        interest.
Depends: R (>= 4.1)
Imports: locfdr, SummarizedExperiment, BiocParallel, limma, pbapply,
        ggplot2, boot, Matrix, stats, methods, graphics
Suggests: knitr, rmarkdown, testthat, covr, BiocStyle, AnnotationHub,
        ensembldb, edgeR, DEXSeq, stageR, DelayedArray
VignetteBuilder: knitr
Collate: 'data.R' 'satuRn-framework.R' 'allGenerics.R' 'accessors.R'
        'fitDTU.R' 'testDTU.R' 'plotDTU.R'
License: Artistic-2.0
URL: https://github.com/statOmics/satuRn
BugReports: https://github.com/statOmics/satuRn/issues
Encoding: UTF-8
LazyData: false
RoxygenNote: 7.2.0
biocViews: Regression, ExperimentalDesign, DifferentialExpression,
        GeneExpression, RNASeq, Sequencing, Software, SingleCell,
        Transcriptomics, MultipleComparison, Visualization
Config/pak/sysreqs: zlib1g-dev
Repository: https://bioc-release.r-universe.dev
Date/Publication: 2025-10-29 15:06:23 UTC
RemoteUrl: https://github.com/bioc/satuRn
RemoteRef: RELEASE_3_22
RemoteSha: 20071e7bfc97ad86e702366918543a2719a2c2d6
NeedsCompilation: no
Packaged: 2026-03-16 08:31:18 UTC; root
Author: Jeroen Gilis [aut, cre],
  Kristoffer Vitting-Seerup [ctb],
  Koen Van den Berge [ctb],
  Lieven Clement [ctb]
Maintainer: Jeroen Gilis <jeroen.gilis@ugent.be>
Built: R 4.5.3; ; 2026-03-16 08:33:07 UTC; windows
