Package: CircSeqAlignTk
Type: Package
Title: End-to-End Analysis of Small RNA-Seq Data from Viroids
Version: 1.13.0
Authors@R: 
    c(person("Jianqiang", "Sun",
                email = "sun@bitdessin.dev",
                role = c("cre", "aut"),
           comment = c(ORCID = "0000-0002-3438-3199")),
      person("Xi", "Fu", role = c("ctb")),
      person("Wei", "Cao", role = c("ctb")))
Description:
    CircSeqAlignTk is a toolkit for the analysis of RNA-Seq data
    derived from circular genome sequences, with a primary focus on viroids,
    circular RNAs typically consisting of a few hundred nucleotides.
    The toolkit supports an end-to-end analysis pipeline,
    from alignment to visualization.
Depends: R (>= 4.2)
Imports:
    stats,
    tools,
    utils,
    R.utils,
    methods,
    S4Vectors,
    rlang,
    magrittr,
    dplyr,
    tidyr,
    ggplot2,
    BiocGenerics,
    Biostrings,
    IRanges,
    ShortRead,
    Rsamtools,
    Rbowtie2,
    Rhisat2,
    shiny,
    shinyFiles,
    shinyjs,
    plotly,
    parallel,
    htmltools
Suggests:
    knitr,
    rmarkdown,
    testthat,
    BiocStyle
VignetteBuilder: knitr
biocViews: Sequencing, SmallRNA, Alignment, Software
License: MIT + file LICENSE
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.1
URL: https://github.com/bitdessin/CircSeqAlignTk
BugReports: https://github.com/bitdessin/CircSeqAlignTk/issues
git_url: https://git.bioconductor.org/packages/CircSeqAlignTk
git_branch: devel
git_last_commit: 4415fca
git_last_commit_date: 2025-10-29
Repository: Bioconductor 3.23
