scRepertoire/DESCRIPTION at master · BorchLab/scRepertoire · GitHub

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Package: scRepertoire
Title: A toolkit for single-cell immune receptor profiling
Version: 2.6.2
Authors@R: c(
    person(given = "Nick", family = "Borcherding", role = c("aut", "cre"), email = "ncborch@gmail.com"),
    person(given = "Qile", family = "Yang", role = c("aut"), email = "qile.yang@berkeley.edu"),
    person(given = "Ksenia", family = "Safina", role = c("aut"), email = "safina@broadinstitute.org"),
    person(given = "Justin", family = "Reimertz", role = c("ctb"), email = "justin.reimertz@childrens.harvard.edu"))
Description: scRepertoire is a toolkit for processing and analyzing single-cell T-cell receptor (TCR) and immunoglobulin (Ig). The scRepertoire framework supports use of 10x, AIRR, BD, MiXCR, TRUST4, and WAT3R single-cell formats. The functionality includes basic clonal analyses, repertoire summaries, distance-based clustering and interaction with the popular Seurat and SingleCellExperiment/Bioconductor R single-cell workflows.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.3.3
biocViews: Software, ImmunoOncology, SingleCell, Classification, Annotation, Sequencing
Depends:
     ggplot2,
     R (>= 4.0)
Imports:
    dplyr,
    evmix,
    ggalluvial,
    ggdendro,
    ggraph,
    grDevices,
    igraph,
    immApex,
    iNEXT,
    Matrix,
    quantreg,
    Rcpp,
    rjson,
    rlang,
    S4Vectors,
    SeuratObject,
    SingleCellExperiment,
    SummarizedExperiment,
    tidygraph,
    purrr,
    lifecycle,
    methods
Suggests:
    BiocManager,
    BiocStyle,
    circlize,
    knitr,
    Peptides,
    rmarkdown,
    scales,
    scater,
    Seurat,
    spelling,
    testthat (>= 3.0.0)
VignetteBuilder: knitr
Config/testthat/edition: 3
Language: en-US
LinkingTo:
    Rcpp
URL: https://www.borch.dev/uploads/scRepertoire/
BugReports: https://github.com/BorchLab/scRepertoire/issues
Roxygen: list(markdown = TRUE)