Package: TreeSummarizedExperiment
Type: Package
Title: TreeSummarizedExperiment: a S4 Class for Data with Tree Structures 
Version: 2.19.0
Date: 2025-03-10
Authors@R: 
    c(person("Ruizhu", "Huang", email = "ruizhuRH@gmail.com",
      role = c("aut", "cre"), comment = c(ORCID = "0000-0003-3285-1945")),
      person("Felix G.M.", "Ernst", email = "felix.gm.ernst@outlook.com",
      role = c("ctb"), comment = c(ORCID = "0000-0001-5064-0928")),
      person(given = "Mark", family = "Robinson", role = c("ctb"),
             email = "mark.robinson@mls.uzh.ch",
             comment = c(ORCID = "0000-0002-3048-5518")),
      person(given = "Tuomas", family = "Borman", role = c("ctb"),
             comment = c(ORCID = "0000-0002-8563-8884")))
Description: TreeSummarizedExperiment has extended SingleCellExperiment to 
    include hierarchical information on the rows or columns of the rectangular 
    data.
Depends: 
    R(>= 3.6.0),
    SingleCellExperiment,
    S4Vectors (>= 0.23.18),
    Biostrings
License: GPL (>=2)
Encoding: UTF-8
LazyData: true
biocViews: DataRepresentation, Infrastructure
Imports:
    methods,
    BiocGenerics,
    utils,
    ape,
    rlang,
    dplyr,
    SummarizedExperiment,
    BiocParallel,
    IRanges,
    treeio
VignetteBuilder: knitr
Suggests: 
    ggtree,
    ggplot2,
    BiocStyle,
    knitr,
    rmarkdown,
    testthat
RoxygenNote: 7.1.1
Collate: 
    'TreeSummarizedExperiment.R'
    'aboutLoop.R'
    'allClass.R'
    'aggTSE.R'
    'allGenerics.R'
    'changeTree.R'
    'classAccessor.R'
    'classValid.R'
    'coercion.R'
    'combine.R'
    'data.R'
    'deprecate_Fun.R'
    'internal_utils.R'
    'makeTSE.R'
    'tree_addLabel.R'
    'tree_asLeaf.R'
    'tree_asPhylo.R'
    'tree_convertNode.R'
    'tree_countLeaf.R'
    'tree_countNode.R'
    'tree_distNode.R'
    'tree_findAncestor.R'
    'tree_findChild.R'
    'tree_findDescendant.R'
    'tree_findSibling.R'
    'tree_isLeaf.R'
    'tree_joinNode.R'
    'tree_matTree.R'
    'tree_printNode.R'
    'tree_shareNode.R'
    'tree_showNode.R'
    'tree_toTree.R'
    'tree_trackNode.R'
    'tree_unionLeaf.R'
    'updateObject.R'
git_url: https://git.bioconductor.org/packages/TreeSummarizedExperiment
git_branch: devel
git_last_commit: d592bc4
git_last_commit_date: 2025-10-29
Repository: Bioconductor 3.23
