Package: karyotapR
Title: DNA Copy Number Analysis for Genome-Wide Tapestri Panels
Version: 1.0.2
Authors@R: 
    person("Joseph", "Mays", email = "josephcmays@gmail.com", 
    role = c("aut", "cre", "cph"),
    comment = c(ORCID = "0000-0003-4903-938X"))
Description: Analysis of DNA copy number in single cells using 
    custom genome-wide targeted DNA sequencing panels for the Mission Bio 
    Tapestri platform. Users can easily parse, manipulate, and visualize 
    datasets produced from the automated 'Tapestri Pipeline', with support for 
    normalization, clustering, and copy number calling. Functions are also 
    available to deconvolute multiplexed samples by genotype and parsing 
    barcoded reads from exogenous lentiviral constructs.
License: MIT + file LICENSE
Encoding: UTF-8
RoxygenNote: 7.2.3
URL: https://github.com/joeymays/karyotapR,
        http://joeymays.xyz/karyotapR/
BugReports: https://github.com/joeymays/karyotapR/issues
biocViews:
Imports: circlize, cli, ComplexHeatmap, dbscan, dplyr, fitdistrplus,
        GenomeInfoDb, GenomicRanges, ggplot2, gtools, IRanges,
        magrittr, methods, purrr, rhdf5, rlang, S4Vectors, stats,
        SummarizedExperiment, tibble, tidyr, umap, viridisLite
Depends: R (>= 4.1), SingleCellExperiment
Suggests: Biostrings, knitr, rmarkdown, Rsamtools, testthat (>= 3.0.0)
Config/testthat/edition: 3
Config/Needs/website: forcats, purrr, ggdist
NeedsCompilation: no
Packaged: 2025-11-01 20:14:43 UTC; joeym
Author: Joseph Mays [aut, cre, cph] (ORCID:
    <https://orcid.org/0000-0003-4903-938X>)
Maintainer: Joseph Mays <josephcmays@gmail.com>
Repository: CRAN
Date/Publication: 2025-11-01 22:40:08 UTC
Built: R 4.5.3; ; 2026-07-01 05:22:33 UTC; windows
