Package: SpliceImpactR
Type: Package
Title: An R package to identify functional impacts due to alternative
        RNA processing events
Version: 0.99.4
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
git_url: https://git.bioconductor.org/packages/SpliceImpactR
git_branch: devel
git_last_commit: 25ae9d1
git_last_commit_date: 2026-03-23
Repository: Bioconductor 3.23
Date/Publication: 2026-04-08
NeedsCompilation: no
Packaged: 2026-04-09 00:32:27 UTC; biocbuild
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)
