Package: ctgGEM
Type: Package
Title: Generating Tree Hierarchy Visualizations from Gene Expression
        Data
Version: 1.6.0
Authors@R: c(person("Mark","Block",role="aut"),
          person("Carrie","Minette",email="carrie.minette@coyotes.usd.edu",
                role="aut"),
          person("Evgeni","Radichev",email="evgeni.radichev@usd.edu",
                role="aut"),
          person("Etienne","Gnimpieba",email="etienne.gnimpieba@usd.edu",
                role="aut"),
          person("Mariah","Hoffman",email="mariah.hoffman@coyotes.usd.edu",
                role="aut"),
          person("USD","Biomedical Engineering",email="bicbioeng@gmail.com",
                role=c("aut","cre")))
Description: Cell Tree Generator for Gene Expression Matrices (ctgGEM) streamlines the building of cell-state
    hierarchies from single-cell gene expression data across multiple existing tools for improved
    comparability and reproducibility. It supports pseudotemporal ordering algorithms and visualization
    tools from monocle, cellTree, TSCAN, sincell, and destiny, and provides a unified output format for
    integration with downstream data analysis workflows and Cytoscape.
VignetteBuilder: knitr
License: GPL(>=2)
Encoding: UTF-8
biocViews: GeneExpression, Visualization, Sequencing, SingleCell,
        Clustering, RNASeq, ImmunoOncology, DifferentialExpression,
        MultipleComparison, QualityControl, DataImport
RoxygenNote: 7.1.1
Roxygen: list(markdown = TRUE)
Depends: monocle, SummarizedExperiment,
Imports: Biobase, BiocGenerics, graphics, grDevices, igraph, Matrix,
        methods, utils, sincell, TSCAN
Suggests: BiocStyle, biomaRt, HSMMSingleCell, irlba, knitr, rmarkdown,
        VGAM
Collate: 'ctgGEMset-class.R' 'ctgGEMset-methods.R' 'generate_tree.R'
        'makeMonocle.R' 'makeSincell.R' 'makeTSCAN.R'
        'plotOriginalTree.R' 'tree2igraph.R'
git_url: https://git.bioconductor.org/packages/ctgGEM
git_branch: RELEASE_3_14
git_last_commit: 619fedc
git_last_commit_date: 2021-10-26
Date/Publication: 2021-10-26
NeedsCompilation: no
Packaged: 2021-10-27 00:56:12 UTC; biocbuild
Author: Mark Block [aut],
  Carrie Minette [aut],
  Evgeni Radichev [aut],
  Etienne Gnimpieba [aut],
  Mariah Hoffman [aut],
  USD Biomedical Engineering [aut, cre]
Maintainer: USD Biomedical Engineering <bicbioeng@gmail.com>
Built: R 4.1.1; ; 2021-10-27 10:30:03 UTC; windows
