Package: transomics2cytoscape
Title: A tool set for 3D Trans-Omic network visualization with
        Cytoscape
Version: 1.0.0
Authors@R: c(
    person ("Kozo", "Nishida", email = "kozo.nishida@gmail.com",
        role = c("aut", "cre"), comment = c(ORCID = "0000-0001-8501-7319")),
    person ("Katsuyuki", "Yugi", email = "katsuyuki.yugi@riken.jp",
        role = c("aut"), comment = c(ORCID = "0000-0002-2046-4289"))
    )
Description: transomics2cytoscape generates a file for 3D transomics
    visualization by providing input that specifies the IDs of multiple
    KEGG pathway layers, their corresponding Z-axis heights, and an input that
    represents the edges between the pathway layers.
    The edges are used, for example, to describe the relationships between
    kinase on a pathway and enzyme on another pathway.
    This package automates creation of a transomics network as
    shown in the figure in Yugi.2014
    (https://doi.org/10.1016/j.celrep.2014.07.021)
    using Cytoscape automation
    (https://doi.org/10.1186/s13059-019-1758-4).
License: Artistic-2.0
Imports: RCy3, KEGGREST, dplyr
Suggests: testthat, roxygen2, knitr, BiocStyle, rmarkdown
Encoding: UTF-8
LazyData: true
biocViews: Network, Software, Pathways, DataImport, KEGG
VignetteBuilder: knitr
SystemRequirements: Java 11, Cytoscape 3.8.*, Cy3D >= 1.1.2
RoxygenNote: 7.1.1
git_url: https://git.bioconductor.org/packages/transomics2cytoscape
git_branch: RELEASE_3_12
git_last_commit: 3891d0e
git_last_commit_date: 2020-10-27
Date/Publication: 2020-10-28
NeedsCompilation: no
Packaged: 2020-10-29 03:45:59 UTC; biocbuild
Author: Kozo Nishida [aut, cre] (<https://orcid.org/0000-0001-8501-7319>),
  Katsuyuki Yugi [aut] (<https://orcid.org/0000-0002-2046-4289>)
Maintainer: Kozo Nishida <kozo.nishida@gmail.com>
Built: R 4.0.3; ; 2020-10-29 14:07:13 UTC; windows
