Package: CircSeqAlignTk
Type: Package
Title: End-to-End Analysis of Small RNA-Seq Data from Viroids
Version: 1.15.0
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
Config/pak/sysreqs: cmake libglpk-dev make libbz2-dev libicu-dev
        libjpeg-dev liblzma-dev libpng-dev libuv1-dev libxml2-dev
        libssl-dev xz-utils zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2026-04-28 12:59:07 UTC
RemoteUrl: https://github.com/bioc/CircSeqAlignTk
RemoteRef: HEAD
RemoteSha: 680cbf01d4f80028ee1c85a0eff128848f40705c
NeedsCompilation: no
Packaged: 2026-07-15 05:09:37 UTC; root
Author: Jianqiang Sun [cre, aut] (ORCID:
    <https://orcid.org/0000-0002-3438-3199>),
  Xi Fu [ctb],
  Wei Cao [ctb]
Maintainer: Jianqiang Sun <sun@bitdessin.dev>