Package: SpliceImpactR
Type: Package
Title: An R package to identify functional impacts due to alternative
        RNA processing events
Version: 1.1.0
Authors@R: c(person(given="Zachary", family="Wakefield",
    email = "zachpw@bu.edu",
    role = c("cre", "aut"),
    comment = c(ORCID = "0000-0002-9104-0934")),
    person(given="Ana", family="Fiszbein",
    email = "anafisz@bu.edu",
    role = c("aut")))
Description: Works by taking in processed data from the HIT Index
        and/or rMATS and identifying how differentially used
        alternative RNA processing events lead to changes in protein
        function through various means. Primarily this is done through
        protein similarity, functional protein domain analysis, and
        domain-domain interaction changes. Notably, we both identify
        alterantive RNA processing event 'swaps' across condition and
        are able to perform holistic analyses regarding the impact of
        different RNA processing events.
License: GPL-3
Encoding: UTF-8
Imports: data.table, BiocFileCache, BiocParallel, Biostrings,
        GenomicRanges, SummarizedExperiment, biomaRt, IRanges, PFAM.db,
        dplyr, ggplot2, ggpubr, patchwork, pwalign, rtracklayer,
        scales, stats, tidyr, tools, utils, magrittr, methods,
        S4Vectors
RoxygenNote: 7.3.3
biocViews: AlternativeSplicing, DifferentialSplicing,
        StatisticalMethod, Alignment
Suggests: devtools, testthat (>= 3.0.0), knitr, rmarkdown, cowplot,
        stringr, readr, tibble, BiocStyle, clusterProfiler,
        AnnotationDbi, msigdbr, org.Hs.eg.db, org.Mm.eg.db
VignetteBuilder: knitr
Config/testthat/edition: 3
BugReports: https://github.com/fiszbein-lab/SpliceImpactR/issues
Config/pak/sysreqs: cmake make libbz2-dev libicu-dev liblzma-dev
        libpng-dev libxml2-dev libssl-dev xz-utils zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2026-04-28 13:06:51 UTC
RemoteUrl: https://github.com/bioc/SpliceImpactR
RemoteRef: HEAD
RemoteSha: 64b59abd29e1fab8340fd18f9bd4a9090606507f
NeedsCompilation: no
Packaged: 2026-07-03 22:54:28 UTC; root
Author: Zachary Wakefield [cre, aut] (ORCID:
    <https://orcid.org/0000-0002-9104-0934>),
  Ana Fiszbein [aut]
Maintainer: Zachary Wakefield <zachpw@bu.edu>
Depends: R (>= 3.5.0)