Package: scafari
Type: Package
Title: Analysis of scDNA-seq data
Version: 1.1.0
Authors@R: 
	person("Sophie", "Wind", , 
	 email = "sophie.wind@uni-muenster.de", 
	 role = c("aut", "cre"),
	 comment=c(ORCID="0009-0002-1174-8201"))
Description: Scafari is a Shiny application designed for the analysis of single-cell DNA sequencing (scDNA-seq) data provided in .h5 file format. The analysis process is structured into the four key steps "Sequencing", "Panel", "Variants", and "Explore Variants". It supports various analyses and visualizations.
Depends: R (>= 4.5.0)
License: LGPL-3
Encoding: UTF-8
Imports:
    magrittr,
    shiny,
    shinycssloaders,
    DT,
    dplyr,
    waiter,
    ggplot2,
    tibble,
    stringr,
    reshape2,
    shinyjs,
    shinyBS,
    shinycustomloader,
    factoextra,
    markdown,
    plotly,
    ggbio,
    GenomicRanges,
    rhdf5,
    ComplexHeatmap,
    biomaRt,
    org.Hs.eg.db,
    SummarizedExperiment,
    SingleCellExperiment,
    S4Vectors,
    parallel,
    httr,
    jsonlite, 
    scales,
    tidyr,
    txdbmaker,
    circlize,
    R.utils,
    dbscan,
    igraph,
    RANN
VignetteBuilder: knitr
Suggests: 
    knitr,
    rmarkdown,
    BiocStyle,
    testthat (>= 3.0.0)
biocViews: Software, ShinyApps, SingleCell, Sequencing
BugReports: https://github.com/sophiewind/scafari/issues
URL: https://github.com/sophiewind/scafari
RoxygenNote: 7.3.2
Config/testthat/edition: 3
git_url: https://git.bioconductor.org/packages/scafari
git_branch: devel
git_last_commit: 0bee2a7
git_last_commit_date: 2025-10-29
Repository: Bioconductor 3.23
