{
  "_id": "6a1854fbacfb0bcc41db7804",
  "Package": "ndexr",
  "Type": "Package",
  "Title": "NDEx R client library",
  "Version": "1.35.0",
  "Date": "2018-04-27",
  "Authors@R": "c(\nperson(given = \"Florian\", family = \"Auer\",\nrole = c(\"cre\",\"aut\"),\nemail = \"florian.auer@informatik.uni-augsburg.de\",\ncomment = c(ORCID = \"0000-0002-5320-8900\")),\nperson(given = \"Frank\", family = \"Kramer\",\nrole = c(\"ctb\"),\nemail = \"frank.kramer@informatik.uni-augsburg.de\"),\nperson(given = \"Alex\", family = \"Ishkin\",\nrole = c(\"ctb\"),\nemail = \"aleksandr.ishkin@thomsonreuters.com\"),\nperson(given = \"Dexter\", family = \"Pratt\",\nrole = c(\"ctb\"),\nemail = \"depratt@ucsc.edu\"))",
  "Description": "This package offers an interface to NDEx servers, e.g. the\npublic server at http://ndexbio.org/. It can retrieve and save\nnetworks via the API. Networks are offered as RCX object and as\nigraph representation.",
  "License": "BSD_3_clause + file LICENSE",
  "RoxygenNote": "7.2.3",
  "Encoding": "UTF-8",
  "biocViews": "Pathways, DataImport, Network",
  "VignetteBuilder": "knitr",
  "URL": "https://github.com/frankkramer-lab/ndexr",
  "BugReports": "https://github.com/frankkramer-lab/ndexr/issues",
  "Config/pak/sysreqs": "libglpk-dev libicu-dev libxml2-dev libssl-dev",
  "Repository": "https://bioc.r-universe.dev",
  "Date/Publication": "2026-04-28 12:45:44 UTC",
  "RemoteUrl": "https://github.com/bioc/ndexr",
  "RemoteRef": "HEAD",
  "RemoteSha": "618bdcaf57100b76d66c33785d47d0d392f9f3ca",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-05-28 14:35:53 UTC",
    "User": "root"
  },
  "Author": "Florian Auer [cre, aut] (ORCID:\n<https://orcid.org/0000-0002-5320-8900>),\nFrank Kramer [ctb],\nAlex Ishkin [ctb],\nDexter Pratt [ctb]",
  "Maintainer": "Florian Auer <florian.auer@informatik.uni-augsburg.de>",
  "MD5sum": "e4c832894185c999f48cf9d7b82f0f35",
  "_user": "bioc",
  "_type": "src",
  "_file": "ndexr_1.35.0.tar.gz",
  "_fileid": "6bc61f2ac3c92fddd2553ea563abf9a0f0f437a414ded83c62dd2da249f764a8",
  "_filesize": 971386,
  "_sha256": "6bc61f2ac3c92fddd2553ea563abf9a0f0f437a414ded83c62dd2da249f764a8",
  "_created": "2026-05-28T14:35:53.000Z",
  "_published": "2026-05-28T14:45:15.665Z",
  "_jobs": [
    {
      "job": 78315373923,
      "time": 134,
      "config": "bioc-checks",
      "r": "4.6.0",
      "check": "WARNING",
      "artifact": "7268794457"
    },
    {
      "job": 78315373987,
      "time": 204,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "ERROR",
      "artifact": "7268823536"
    },
    {
      "job": 78315373741,
      "time": 339,
      "config": "linux-release-x86_64",
      "r": "4.6.0",
      "check": "ERROR",
      "artifact": "7268880516"
    },
    {
      "job": 78315373706,
      "time": 95,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "ERROR",
      "artifact": "7268929572"
    },
    {
      "job": 78315373679,
      "time": 107,
      "config": "macos-release-arm64",
      "r": "4.6.0",
      "check": "ERROR",
      "artifact": "7268906014"
    },
    {
      "job": 78314745278,
      "time": 179,
      "config": "source",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7268737446"
    },
    {
      "job": 78315373824,
      "time": 119,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7268788044"
    },
    {
      "job": 78315373852,
      "time": 104,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "ERROR",
      "artifact": "7268782414"
    },
    {
      "job": 78315373901,
      "time": 148,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "ERROR",
      "artifact": "7268800475"
    },
    {
      "job": 78315373695,
      "time": 115,
      "config": "windows-release",
      "r": "4.6.0",
      "check": "ERROR",
      "artifact": "7268786424"
    }
  ],
  "_bioccheck": {
    "error": 0,
    "warning": 1,
    "note": 11
  },
  "_buildurl": "https://github.com/r-universe/bioc/actions/runs/26581272982",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_upstream": "https://github.com/bioc/ndexr",
  "_commit": {
    "id": "618bdcaf57100b76d66c33785d47d0d392f9f3ca",
    "author": "A Wokaty <andres.wokaty@sph.cuny.edu>",
    "committer": "A Wokaty <andres.wokaty@sph.cuny.edu>",
    "message": "bump x.y.z version to odd y following creation of RELEASE_3_23 branch\n",
    "time": 1777380344
  },
  "_maintainer": {
    "name": "Florian Auer",
    "email": "florian.auer@informatik.uni-augsburg.de",
    "login": "florian-j-auer",
    "description": "",
    "uuid": 20659040,
    "orcid": "0000-0002-5320-8900"
  },
  "_distro": "noble",
  "_registered": true,
  "_dependencies": [
    {
      "package": "RCX",
      "role": "Depends"
    },
    {
      "package": "httr",
      "role": "Imports"
    },
    {
      "package": "jsonlite",
      "role": "Imports"
    },
    {
      "package": "plyr",
      "role": "Imports"
    },
    {
      "package": "tidyr",
      "role": "Imports"
    },
    {
      "package": "BiocStyle",
      "role": "Suggests"
    },
    {
      "package": "testthat",
      "role": "Suggests"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    },
    {
      "package": "rmarkdown",
      "role": "Suggests"
    }
  ],
  "_owner": "bioc",
  "_selfowned": true,
  "_usedby": 0,
  "_updates": [
    {
      "week": "2025-44",
      "n": 2
    },
    {
      "week": "2026-18",
      "n": 2
    }
  ],
  "_tags": [],
  "_bioc": [
    {
      "branch": "devel",
      "version": "1.35.0",
      "bioc": "3.24"
    },
    {
      "branch": "release",
      "version": "1.34.0",
      "bioc": "3.23"
    }
  ],
  "_topics": [
    "pathways",
    "dataimport",
    "network"
  ],
  "_stars": 9,
  "_contributors": [
    {
      "user": "florian-j-auer",
      "count": 51,
      "uuid": 20659040
    },
    {
      "user": "donshikin",
      "count": 21,
      "uuid": 174282
    },
    {
      "user": "frankkramer",
      "count": 14,
      "uuid": 1914156
    },
    {
      "user": "nturaga",
      "count": 14,
      "uuid": 2746443
    },
    {
      "user": "dexterpratt",
      "count": 8,
      "uuid": 1108652
    },
    {
      "user": "hpages",
      "count": 2,
      "uuid": 8810451
    },
    {
      "user": "jwokaty",
      "count": 2,
      "uuid": 1744257
    },
    {
      "user": "vobencha",
      "count": 2,
      "uuid": 2466173
    },
    {
      "user": "link-ny",
      "count": 1,
      "uuid": 4392950
    }
  ],
  "_userbio": {
    "uuid": 2286807,
    "type": "organization",
    "name": "Bioconductor",
    "description": "Software for the analysis and comprehension of high-throughput genomic data"
  },
  "_downloads": {
    "count": 384,
    "source": "https://www.bioconductor.org/packages/stats/bioc/ndexr"
  },
  "_devurl": "https://github.com/frankkramer-lab/ndexr",
  "_searchresults": 44,
  "_rbuild": "4.6.0",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/ndexr.html",
    "extra/NEWS.html",
    "extra/NEWS.txt",
    "extra/readme.html",
    "extra/readme.md",
    "manual.pdf"
  ],
  "_homeurl": "https://github.com/frankkramer-lab/ndexr",
  "_realowner": "bioc",
  "_cranurl": false,
  "_exports": [
    "ndex_config",
    "ndex_connect",
    "ndex_create_group",
    "ndex_create_network",
    "ndex_create_user",
    "ndex_delete_group",
    "ndex_delete_network",
    "ndex_delete_user",
    "ndex_find_groups",
    "ndex_find_networks",
    "ndex_find_user_byId",
    "ndex_find_user_byName",
    "ndex_find_users",
    "ndex_get_group",
    "ndex_get_network",
    "ndex_group_delete_membership",
    "ndex_group_list_networks",
    "ndex_group_list_users",
    "ndex_group_network_get_permission",
    "ndex_group_set_membership",
    "ndex_network_aspect_get_metadata",
    "ndex_network_delete_permission",
    "ndex_network_get_aspect",
    "ndex_network_get_metadata",
    "ndex_network_get_permission",
    "ndex_network_get_provenance",
    "ndex_network_get_summary",
    "ndex_network_set_systemProperties",
    "ndex_network_update_aspect",
    "ndex_network_update_permission",
    "ndex_network_update_profile",
    "ndex_update_group",
    "ndex_update_network",
    "ndex_update_user",
    "ndex_user_change_password",
    "ndex_user_forgot_password",
    "ndex_user_get_networksummary",
    "ndex_user_get_showcase",
    "ndex_user_list_groups",
    "ndex_user_list_permissions",
    "ndex_user_mail_password",
    "ndex_user_show_group",
    "ndex_user_show_permission",
    "ndex_verify_user"
  ],
  "_help": [
    {
      "page": "ndexr-package",
      "title": "NDEx R client library",
      "topics": [
        "ndexr-package",
        "ndexr"
      ]
    },
    {
      "page": "ndex_config",
      "title": "NDEx server api configuration",
      "topics": [
        "ndex_config"
      ]
    },
    {
      "page": "ndex_connect",
      "title": "Connect to NDEx REST API",
      "topics": [
        "ndex_connect"
      ]
    },
    {
      "page": "ndex_create_group",
      "title": "Create Group",
      "topics": [
        "ndex_create_group"
      ]
    },
    {
      "page": "ndex_create_network",
      "title": "Create a Network at a server from RCX data",
      "topics": [
        "ndex_create_network"
      ]
    },
    {
      "page": "ndex_create_user",
      "title": "Create a user",
      "topics": [
        "ndex_create_user"
      ]
    },
    {
      "page": "ndex_delete_group",
      "title": "Delete Group",
      "topics": [
        "ndex_delete_group"
      ]
    },
    {
      "page": "ndex_delete_network",
      "title": "Delete a network",
      "topics": [
        "ndex_delete_network"
      ]
    },
    {
      "page": "ndex_delete_user",
      "title": "Delete User",
      "topics": [
        "ndex_delete_user"
      ]
    },
    {
      "page": "ndex_find_groups",
      "title": "Search groups in NDEx",
      "topics": [
        "ndex_find_groups"
      ]
    },
    {
      "page": "ndex_find_networks",
      "title": "Search networks in NDEx (by description)",
      "topics": [
        "ndex_find_networks"
      ]
    },
    {
      "page": "ndex_find_user_byId",
      "title": "Get User By UUID",
      "topics": [
        "ndex_find_user_byId"
      ]
    },
    {
      "page": "ndex_find_user_byName",
      "title": "Get User By Name",
      "topics": [
        "ndex_find_user_byName"
      ]
    },
    {
      "page": "ndex_find_users",
      "title": "Search user in NDEx",
      "topics": [
        "ndex_find_users"
      ]
    },
    {
      "page": "ndex_get_group",
      "title": "Get a Group",
      "topics": [
        "ndex_get_group"
      ]
    },
    {
      "page": "ndex_get_network",
      "title": "Get complete network",
      "topics": [
        "ndex_get_network"
      ]
    },
    {
      "page": "ndex_group_delete_membership",
      "title": "Remove a Group Member",
      "topics": [
        "ndex_group_delete_membership"
      ]
    },
    {
      "page": "ndex_group_list_networks",
      "title": "Get Network Permissions of a Group",
      "topics": [
        "ndex_group_list_networks"
      ]
    },
    {
      "page": "ndex_group_list_users",
      "title": "Get Members of a Group",
      "topics": [
        "ndex_group_list_users"
      ]
    },
    {
      "page": "ndex_group_network_get_permission",
      "title": "Get Group Permission for a Specific Network",
      "topics": [
        "ndex_group_network_get_permission"
      ]
    },
    {
      "page": "ndex_group_set_membership",
      "title": "Add or Update a Group Member",
      "topics": [
        "ndex_group_set_membership"
      ]
    },
    {
      "page": "ndex_network_aspect_get_metadata",
      "title": "Get the Metadata Associated with a Network UUID",
      "topics": [
        "ndex_network_aspect_get_metadata"
      ]
    },
    {
      "page": "ndex_network_delete_permission",
      "title": "Delete Network Permission",
      "topics": [
        "ndex_network_delete_permission"
      ]
    },
    {
      "page": "ndex_network_get_aspect",
      "title": "Get a Network Aspect As CX",
      "topics": [
        "ndex_network_get_aspect"
      ]
    },
    {
      "page": "ndex_network_get_metadata",
      "title": "Get Network CX Metadata Collection",
      "topics": [
        "ndex_network_get_metadata"
      ]
    },
    {
      "page": "ndex_network_get_permission",
      "title": "Get All Permissions on a Network",
      "topics": [
        "ndex_network_get_permission"
      ]
    },
    {
      "page": "ndex_network_get_provenance",
      "title": "Get Network Provenance",
      "topics": [
        "ndex_network_get_provenance"
      ]
    },
    {
      "page": "ndex_network_get_summary",
      "title": "Get NetworkSummary by Network UUID",
      "topics": [
        "ndex_network_get_summary"
      ]
    },
    {
      "page": "ndex_network_set_systemProperties",
      "title": "Set Network System Properties",
      "topics": [
        "ndex_network_set_systemProperties"
      ]
    },
    {
      "page": "ndex_network_update_aspect",
      "title": "Update an Aspect of a Network",
      "topics": [
        "ndex_network_update_aspect"
      ]
    },
    {
      "page": "ndex_network_update_permission",
      "title": "Update Network Permission",
      "topics": [
        "ndex_network_update_permission"
      ]
    },
    {
      "page": "ndex_network_update_profile",
      "title": "Update Network Profile",
      "topics": [
        "ndex_network_update_profile"
      ]
    },
    {
      "page": "ndex_update_group",
      "title": "Update Group",
      "topics": [
        "ndex_update_group"
      ]
    },
    {
      "page": "ndex_update_network",
      "title": "Update an Entire Network as CX",
      "topics": [
        "ndex_update_network"
      ]
    },
    {
      "page": "ndex_update_user",
      "title": "Update User",
      "topics": [
        "ndex_update_user"
      ]
    },
    {
      "page": "ndex_user_change_password",
      "title": "Change Password",
      "topics": [
        "ndex_user_change_password"
      ]
    },
    {
      "page": "ndex_user_forgot_password",
      "title": "Forgot Password",
      "topics": [
        "ndex_user_forgot_password"
      ]
    },
    {
      "page": "ndex_user_get_networksummary",
      "title": "Get User's Account Page Networks",
      "topics": [
        "ndex_user_get_networksummary"
      ]
    },
    {
      "page": "ndex_user_get_showcase",
      "title": "Get User's Showcase Networks",
      "topics": [
        "ndex_user_get_showcase"
      ]
    },
    {
      "page": "ndex_user_list_groups",
      "title": "Get User's Group Memberships",
      "topics": [
        "ndex_user_list_groups"
      ]
    },
    {
      "page": "ndex_user_list_permissions",
      "title": "Get User's Network Permissions",
      "topics": [
        "ndex_user_list_permissions"
      ]
    },
    {
      "page": "ndex_user_mail_password",
      "title": "Email New Password",
      "topics": [
        "ndex_user_mail_password"
      ]
    },
    {
      "page": "ndex_user_show_group",
      "title": "Get User's Membership in Group",
      "topics": [
        "ndex_user_show_group"
      ]
    },
    {
      "page": "ndex_user_show_permission",
      "title": "Get User's Permission for Network",
      "topics": [
        "ndex_user_show_permission"
      ]
    },
    {
      "page": "ndex_verify_user",
      "title": "Verify a User",
      "topics": [
        "ndex_verify_user"
      ]
    }
  ],
  "_readme": "https://github.com/bioc/ndexr/raw/HEAD/README.md",
  "_rundeps": [
    "askpass",
    "cli",
    "cpp11",
    "curl",
    "dplyr",
    "generics",
    "glue",
    "httr",
    "igraph",
    "jsonlite",
    "lattice",
    "lifecycle",
    "magrittr",
    "Matrix",
    "mime",
    "openssl",
    "pillar",
    "pkgconfig",
    "plyr",
    "purrr",
    "R6",
    "Rcpp",
    "RCX",
    "rlang",
    "stringi",
    "stringr",
    "sys",
    "tibble",
    "tidyr",
    "tidyselect",
    "utf8",
    "vctrs",
    "withr"
  ],
  "_vignettes": [
    {
      "source": "ndexr-vignette.Rmd",
      "filename": "ndexr-vignette.html",
      "title": "NDExR - R implementaion for NDEx server API",
      "author": "Florian J. Auer, Zaynab Hammoud, Frank Kramer",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Introduction",
        "Installation",
        "Installation from Bioconductor",
        "Installation from GitHub",
        "Quick Start",
        "Connect to a server",
        "Find Networks",
        "Simple network operations",
        "RCX",
        "Example Workflow",
        "Aspects and Metadata",
        "NDEx Network properties",
        "API Compatibility with NDEx versions",
        "Server REST API configuration"
      ],
      "created": "2017-04-03 09:36:13",
      "modified": "2022-10-27 14:48:01",
      "commits": 11
    }
  ],
  "_score": 6.500785172917456,
  "_indexed": true,
  "_nocasepkg": "ndexr",
  "_universes": [
    "bioc",
    "florian-j-auer",
    "frankkramer-lab"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.35.0",
      "date": "2026-05-28T14:39:04.000Z",
      "distro": "noble",
      "commit": "618bdcaf57100b76d66c33785d47d0d392f9f3ca",
      "fileid": "f5ef27d8b9242b4b04757c91941a3e6fae2d6be710c5e1e8a8034e034e1d8da1",
      "status": "failure",
      "check": "ERROR",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26581272982"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "1.35.0",
      "date": "2026-05-28T14:41:18.000Z",
      "distro": "noble",
      "commit": "618bdcaf57100b76d66c33785d47d0d392f9f3ca",
      "fileid": "a755deb7c2610a10ca1f82b557f5797c2e933ecf2c2f766cc88c5e2d792ae07a",
      "status": "failure",
      "check": "ERROR",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26581272982"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.35.0",
      "date": "2026-05-28T14:43:27.000Z",
      "commit": "618bdcaf57100b76d66c33785d47d0d392f9f3ca",
      "fileid": "dadd4eafda3e5e56b9dd961fd081e1f3a048b9eb622efd0d9f50651e326f4e65",
      "status": "failure",
      "check": "ERROR",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26581272982"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "1.35.0",
      "date": "2026-05-28T14:42:28.000Z",
      "commit": "618bdcaf57100b76d66c33785d47d0d392f9f3ca",
      "fileid": "771fe8ac3fe06d7633abe13f00171a13cc1f9a020599051d7bbc51e2faa7ecca",
      "status": "failure",
      "check": "ERROR",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26581272982"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.35.0",
      "date": "2026-05-28T14:38:10.000Z",
      "commit": "618bdcaf57100b76d66c33785d47d0d392f9f3ca",
      "fileid": "2b8cdaf8428bc36370961e84b343cc84e215fcaf37f0c872ddb5af2a71aa21cf",
      "status": "success",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26581272982"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.35.0",
      "date": "2026-05-28T14:37:10.000Z",
      "commit": "618bdcaf57100b76d66c33785d47d0d392f9f3ca",
      "fileid": "c891899fc39bab6065a53aeadd6e1cdae1b09183064a75a7270a2e2a7c71bc3a",
      "status": "failure",
      "check": "ERROR",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26581272982"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "1.35.0",
      "date": "2026-05-28T14:38:03.000Z",
      "commit": "618bdcaf57100b76d66c33785d47d0d392f9f3ca",
      "fileid": "b4450bc9d16baef47c865b7ceebc01332e0f4d826f2fe276091e9a31be3ecee9",
      "status": "failure",
      "check": "ERROR",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26581272982"
    },
    {
      "r": "4.6.0",
      "os": "win",
      "version": "1.35.0",
      "date": "2026-05-28T14:37:20.000Z",
      "commit": "618bdcaf57100b76d66c33785d47d0d392f9f3ca",
      "fileid": "8bfe8ceb24bc5981c4386377b47e8e89892d67309e5b6aa40bd6612ab1aa55dc",
      "status": "failure",
      "check": "ERROR",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26581272982"
    }
  ]
}