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# CITATION file created with {cffr} R package
# See also: https://docs.ropensci.org/cffr/
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cff-version: 1.2.0
message: 'To cite package "SpliceWiz" in publications use:'
type: software
license: MIT
title: 'SpliceWiz: interactive analysis and visualization of alternative splicing
  in R'
version: 1.14.0
doi: 10.1093/bib/bbad468
identifiers:
- type: doi
  value: 10.32614/CRAN.package.SpliceWiz
abstract: The analysis and visualization of alternative splicing (AS) events from
  RNA sequencing data remains challenging. SpliceWiz is a user-friendly and performance-optimized
  R package for AS analysis, by processing alignment BAM files to quantify read counts
  across splice junctions, IRFinder-based intron retention quantitation, and supports
  novel splicing event identification. We introduce a novel visualization for AS using
  normalized coverage, thereby allowing visualization of differential AS across conditions.
  SpliceWiz features a shiny-based GUI facilitating interactive data exploration of
  results including gene ontology enrichment. It is performance optimized with multi-threaded
  processing of BAM files and a new COV file format for fast recall of sequencing
  coverage. Overall, SpliceWiz streamlines AS analysis, enabling reliable identification
  of functionally relevant AS events for further characterization.
authors:
- family-names: Wong
  given-names: Alex Chit Hei
  email: alexchwong.github@gmail.com
preferred-citation:
  type: article
  title: 'SpliceWiz: interactive analysis and visualization of alternative splicing
    in R'
  authors:
  - family-names: Wong
    given-names: Alex CH
  - family-names: Wong
    given-names: Justin J-L
  - family-names: Rasko
    given-names: John EJ
  - family-names: Schmitz
    given-names: Ulf
  year: '2024'
  journal: Briefings in Bioinformatics
  doi: 10.1093/bib/bbad468
repository: https://bioc-release.r-universe.dev
repository-code: https://github.com/alexchwong/SpliceWiz
commit: 1f1fc5742057d338f4583e3a039978b70cfa8bea
url: https://support.bioconductor.org/
date-released: '2025-03-13'
contact:
- family-names: Wong
  given-names: Alex Chit Hei
  email: alexchwong.github@gmail.com