Package: lisat
Title: Longitudinal Integration Site Analysis Toolkit
Version: 0.1.2
Authors@R: 
    person("Shuai", "Ni", , "Nishuai@wakerbio.com", role = c("aut", "cre"))
Description: A comprehensive toolkit for the analysis of longitudinal
        integration site data, including data cleaning, quality
        control, statistical modeling, and visualization. It
        streamlines the entire workflow of integration site analysis,
        supports simple input formats, and provides user-friendly
        functions for researchers in virus integration site analysis.
        Ni et al. (2025) <doi:10.64898/2025.12.20.695672>.
License: MIT + file LICENSE
Encoding: UTF-8
RoxygenNote: 7.2.3
VignetteBuilder: knitr
Depends: R (>= 3.5)
Imports: GenomicRanges (>= 1.50.0), IRanges (>= 2.32.0), tidyr (>=
        1.3.0), dplyr (>= 1.1.4), AnnotationDbi (>= 1.50.0), S4Vectors
        (>= 0.32.0), GenomicFeatures (>= 1.50.0), magrittr, ggplot2,
        purrr, broom
Suggests: TxDb.Hsapiens.UCSC.hg38.knownGene, org.Hs.eg.db, knitr,
        rmarkdown, grid, gt (>= 0.9.0), gtable (>= 0.3.6), this.path
        (>= 2.0.0), plotrix (>= 3.8-2), scales (>= 1.2.0), writexl (>=
        1.4.0), ggrepel (>= 0.9.4), ggpubr (>= 0.6.0), viridisLite (>=
        0.4.2), RIdeogram (>= 0.2.2), patchwork (>= 1.1.3),
        RColorBrewer (>= 1.1-3), colorspace, treemapify, igraph,
        visNetwork, Cairo (>= 1.6-1), testthat (>= 3.0.0)
NeedsCompilation: no
Packaged: 2026-05-26 06:39:15 UTC; root
Author: Shuai Ni [aut, cre]
Maintainer: Shuai Ni <Nishuai@wakerbio.com>
Config/pak/sysreqs: libbz2-dev liblzma-dev libssl-dev xz-utils
        zlib1g-dev
Repository: https://cran.r-universe.dev
Date/Publication: 2026-03-27 11:59:40 UTC
RemoteUrl: https://github.com/cran/lisat
RemoteRef: HEAD
RemoteSha: 30c7ca7c3e4055fe1e5fd487fe7bacd3628f0ed9