DESCRIPTION

Package: APackOfTheClones
Type: Package
Title: Visualization of Clonal Expansion for Single Cell Immune Profiles
Version: 1.2.4
Authors@R: c(
    person(
        "Qile",
        "Yang",
        email = "qile.yang@berkeley.edu",
        role = c("cre","aut","cph"),
        comment = c(ORCID = "0009-0005-0148-2499")
    ))
Maintainer: Qile Yang <qile.yang@berkeley.edu>
Description: Visualize clonal expansion via circle-packing. 'APackOfTheClones' extends 'scRepertoire' to produce a publication-ready visualization of clonal expansion at a single cell resolution, by representing expanded clones as differently sized circles. The method was originally implemented by Murray Christian and Ben Murrell in the following immunology study: Ma et al. (2021) <doi:10.1126/sciimmunol.abg6356>.
BugReports: https://github.com/Qile0317/APackOfTheClones/issues
Depends:
    R (>= 4.1.0)
License: MIT + file LICENSE
Encoding: UTF-8
Language: en-US
LazyData: false
Suggests:
    cowplot,
    covr,
    knitr,
    rmarkdown,
    sf,
    spelling,
    testthat (>= 3.0.0),
    vdiffr
Config/testthat/edition: 3
Imports:
    assertthat,
    dplyr,
    ggforce,
    ggplot2,
    hash,
    lifecycle,
    methods,
    Rcpp,
    rlang,
    Seurat,
    SeuratObject
RoxygenNote: 7.3.2
URL: https://qile0317.github.io/APackOfTheClones/, https://github.com/Qile0317/APackOfTheClones, https://joss.theoj.org/papers/10.21105/joss.06868
LinkingTo:
    Rcpp
Roxygen: list(markdown = TRUE)
VignetteBuilder: knitr