{
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  "Package": "transomics2cytoscape",
  "Title": "A tool set for 3D Trans-Omic network visualization with\nCytoscape",
  "Version": "1.22.0",
  "Authors@R": "c(\nperson (\"Kozo\", \"Nishida\", email = \"kozo.nishida@gmail.com\",\nrole = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0001-8501-7319\")),\nperson (\"Katsuyuki\", \"Yugi\", email = \"katsuyuki.yugi@riken.jp\",\nrole = c(\"aut\"), comment = c(ORCID = \"0000-0002-2046-4289\"))\n)",
  "Description": "transomics2cytoscape generates a file for 3D transomics\nvisualization by providing input that specifies the IDs of\nmultiple KEGG pathway layers, their corresponding Z-axis\nheights, and an input that represents the edges between the\npathway layers. The edges are used, for example, to describe\nthe relationships between kinase on a pathway and enzyme on\nanother pathway. This package automates creation of a\ntransomics network as shown in the figure in Yugi.2014\n(https://doi.org/10.1016/j.celrep.2014.07.021) using Cytoscape\nautomation (https://doi.org/10.1186/s13059-019-1758-4).",
  "License": "Artistic-2.0",
  "Encoding": "UTF-8",
  "biocViews": "Network, Software, Pathways, DataImport, KEGG",
  "VignetteBuilder": "knitr",
  "SystemRequirements": "Cytoscape >= 3.10.0",
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  "Config/pak/sysreqs": "cmake make libicu-dev libpng-dev libuv1-dev\nlibxml2-dev libssl-dev python3 libzmq3-dev zlib1g-dev",
  "Repository": "Bioconductor 3.23",
  "Date/Publication": "2026-04-28 12:53:18 UTC",
  "RemoteUrl": "https://github.com/bioc/transomics2cytoscape",
  "RemoteRef": "RELEASE_3_23",
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  "NeedsCompilation": "no",
  "Packaged": {
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    "User": "root"
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  "Author": "Kozo Nishida [aut, cre] (ORCID:\n<https://orcid.org/0000-0001-8501-7319>),\nKatsuyuki Yugi [aut] (ORCID: <https://orcid.org/0000-0002-2046-4289>)",
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  "_created": "2026-09-22T08:24:54.000Z",
  "_published": "2026-09-22T08:30:03.789Z",
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    "description": "PyData Osaka organizer,\nBioconductor Community Advisory Board,\nSoftware Carpentry Japanese Team\n",
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      "filename": "transomics2cytoscape.html",
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