{
  "_id": "6a1f0613b401979e7341baee",
  "Type": "Package",
  "Package": "richCluster",
  "Title": "Fast, Robust Clustering Algorithms for Gene Enrichment Data",
  "Version": "1.0.2",
  "Date": "2025-12-12",
  "Authors@R": "c(\nperson(\"Junguk\", \"Hur\", , \"hurlabshared@gmail.com\", role = c(\"aut\", \"cre\"),\ncomment = c(ORCID = \"0000-0002-0736-2149\")),\nperson(\"Sarah\", \"Hong\", role = \"aut\"),\nperson(\"Jane\", \"Kim\", role = \"aut\")\n)",
  "Maintainer": "Junguk Hur <hurlabshared@gmail.com>",
  "Description": "Fast 'C++' agglomerative hierarchical clustering algorithm\npackaged into easily callable R functions, designed to help\ncluster biological terms based on how similar of genes are\nexpressed in their activation.",
  "License": "GPL-3",
  "VignetteBuilder": "knitr",
  "Encoding": "UTF-8",
  "RoxygenNote": "7.3.3",
  "URL": "https://github.com/hurlab/richCluster",
  "BugReports": "https://github.com/hurlab/richCluster/issues",
  "Repository": "https://hurlab.r-universe.dev",
  "Date/Publication": "2025-12-13 16:03:51 UTC",
  "RemoteUrl": "https://github.com/hurlab/richcluster",
  "RemoteRef": "HEAD",
  "RemoteSha": "8f63a0c997d8ef5e26fe50eb56bb4ae1704c7734",
  "NeedsCompilation": "yes",
  "Packaged": {
    "Date": "2026-05-18 07:09:02 UTC",
    "User": "root"
  },
  "Author": "Junguk Hur [aut, cre] (ORCID: <https://orcid.org/0000-0002-0736-2149>),\nSarah Hong [aut],\nJane Kim [aut]",
  "MD5sum": "e7c893918d7e07d62c99da03d1d67fb6",
  "_user": "hurlab",
  "_type": "src",
  "_file": "richCluster_1.0.2.tar.gz",
  "_fileid": "16527b166fdea275012094a2460ab2871296470455aa1f8e3be973188fbe8a82",
  "_filesize": 2087234,
  "_sha256": "16527b166fdea275012094a2460ab2871296470455aa1f8e3be973188fbe8a82",
  "_created": "2026-05-18T07:09:02.000Z",
  "_published": "2026-06-02T16:34:27.370Z",
  "_distro": "noble",
  "_jobs": [
    {
      "job": 79121570836,
      "time": 178,
      "config": "linux-devel-arm64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "7051543529"
    },
    {
      "job": 79121570697,
      "time": 185,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "7051545639"
    },
    {
      "job": 79121571103,
      "time": 175,
      "config": "linux-release-arm64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7051542661"
    },
    {
      "job": 79121571365,
      "time": 182,
      "config": "linux-release-x86_64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7051544698"
    },
    {
      "job": 79121571538,
      "time": 230,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "7051567994"
    },
    {
      "job": 79121571143,
      "time": 289,
      "config": "macos-oldrel-x86_64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "7051572052"
    },
    {
      "job": 79121570750,
      "time": 212,
      "config": "macos-release-arm64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7051578795"
    },
    {
      "job": 79121570681,
      "time": 429,
      "config": "macos-release-x86_64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7051657848"
    },
    {
      "job": 79121570530,
      "time": 247,
      "config": "source",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7051495682"
    },
    {
      "job": 79121569712,
      "time": 145,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7363890353"
    },
    {
      "job": 79121570851,
      "time": 173,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "7051542253"
    },
    {
      "job": 79121571074,
      "time": 162,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "7051539850"
    },
    {
      "job": 79121570862,
      "time": 159,
      "config": "windows-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7051538291"
    }
  ],
  "_buildurl": "https://github.com/r-universe/hurlab/actions/runs/26018698764",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_upstream": "https://github.com/hurlab/richcluster",
  "_commit": {
    "id": "8f63a0c997d8ef5e26fe50eb56bb4ae1704c7734",
    "author": "Junguk Hur <jungwindy@gmail.com>",
    "committer": "Junguk Hur <jungwindy@gmail.com>",
    "message": "Auto commit: tDateCommand\n",
    "time": 1765641831
  },
  "_maintainer": {
    "name": "Junguk Hur",
    "email": "hurlabshared@gmail.com",
    "orcid": "0000-0002-0736-2149"
  },
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 3.5.0",
      "role": "Depends"
    },
    {
      "package": "Rcpp",
      "role": "LinkingTo"
    },
    {
      "package": "dplyr",
      "role": "Imports"
    },
    {
      "package": "fields",
      "role": "Imports"
    },
    {
      "package": "heatmaply",
      "role": "Imports"
    },
    {
      "package": "igraph",
      "role": "Imports"
    },
    {
      "package": "iheatmapr",
      "role": "Imports"
    },
    {
      "package": "magrittr",
      "role": "Imports"
    },
    {
      "package": "networkD3",
      "role": "Imports"
    },
    {
      "package": "plotly",
      "role": "Imports"
    },
    {
      "package": "Rcpp",
      "version": ">= 1.0.14",
      "role": "Imports"
    },
    {
      "package": "stats",
      "role": "Imports"
    },
    {
      "package": "tidyr",
      "role": "Imports"
    },
    {
      "package": "viridis",
      "role": "Imports"
    },
    {
      "package": "devtools",
      "role": "Suggests"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    },
    {
      "package": "rmarkdown",
      "role": "Suggests"
    },
    {
      "package": "roxygen2",
      "role": "Suggests"
    },
    {
      "package": "testthat",
      "role": "Suggests"
    }
  ],
  "_owner": "hurlab",
  "_selfowned": true,
  "_usedby": 0,
  "_updates": [
    {
      "week": "2025-38",
      "n": 8
    },
    {
      "week": "2025-39",
      "n": 5
    },
    {
      "week": "2025-48",
      "n": 1
    },
    {
      "week": "2025-50",
      "n": 3
    }
  ],
  "_tags": [],
  "_stars": 0,
  "_contributors": [
    {
      "user": "windysky",
      "count": 17,
      "uuid": 4292570
    }
  ],
  "_userbio": {
    "uuid": 23644399,
    "type": "organization",
    "name": "University of North Dakota Hur Laboratory"
  },
  "_downloads": {
    "count": 195,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/richCluster"
  },
  "_devurl": "https://github.com/hurlab/richcluster",
  "_searchresults": 6,
  "_topics": [
    "cpp"
  ],
  "_rbuild": "4.6.0",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/readme.html",
    "extra/readme.md",
    "extra/richCluster.html",
    "manual.pdf"
  ],
  "_homeurl": "https://github.com/hurlab/richcluster",
  "_realowner": "hurlab",
  "_cranurl": true,
  "_releases": [
    {
      "version": "1.0.2",
      "date": "2025-12-18"
    }
  ],
  "_exports": [
    "cluster",
    "cluster_bar",
    "cluster_correlation_hmap",
    "cluster_dot",
    "cluster_hmap",
    "cluster_network",
    "compare_network_graphs_plotly",
    "david_cluster",
    "export_df",
    "filter_clusters",
    "full_network",
    "merge_enrichment_results",
    "plot_network_graph",
    "runRichCluster",
    "term_bar",
    "term_dot",
    "term_hmap"
  ],
  "_help": [
    {
      "page": "cluster",
      "title": "Cluster Terms from Enrichment Results",
      "topics": [
        "cluster"
      ]
    },
    {
      "page": "cluster_bar",
      "title": "Cluster-level Bar Plot of Enrichment Significance",
      "topics": [
        "cluster_bar"
      ]
    },
    {
      "page": "cluster_correlation_hmap",
      "title": "Create a Correlation Heatmap for a Specific Cluster",
      "topics": [
        "cluster_correlation_hmap"
      ]
    },
    {
      "page": "cluster_dot",
      "title": "Cluster-level Dot Plot of Enrichment Significance",
      "topics": [
        "cluster_dot"
      ]
    },
    {
      "page": "cluster_hmap",
      "title": "Create a Heatmap of Clustered Enrichment Results",
      "topics": [
        "cluster_hmap"
      ]
    },
    {
      "page": "cluster_network",
      "title": "Create a Network Graph for a Specific Cluster",
      "topics": [
        "cluster_network"
      ]
    },
    {
      "page": "compare_network_graphs_plotly",
      "title": "Compare Network Graphs using Plotly",
      "topics": [
        "compare_network_graphs_plotly"
      ]
    },
    {
      "page": "david_cluster",
      "title": "Cluster Terms using DAVID's method",
      "topics": [
        "david_cluster"
      ]
    },
    {
      "page": "export_df",
      "title": "Export Cluster Result as Dataframe",
      "topics": [
        "export_df"
      ]
    },
    {
      "page": "filter_clusters",
      "title": "Filter Clusters by Number of Terms",
      "topics": [
        "filter_clusters"
      ]
    },
    {
      "page": "format_colnames",
      "title": "Format Column Names for Merging",
      "topics": [
        "format_colnames"
      ]
    },
    {
      "page": "full_network",
      "title": "Create a Network Graph for the Entire Distance Matrix",
      "topics": [
        "full_network"
      ]
    },
    {
      "page": "merge_enrichment_results",
      "title": "Merge List of Enrichment Results",
      "topics": [
        "merge_enrichment_results"
      ]
    },
    {
      "page": "plot_network_graph",
      "title": "Plot Network Graph for a Cluster",
      "topics": [
        "plot_network_graph"
      ]
    },
    {
      "page": "runRichCluster",
      "title": "Run clustering in C++ backend",
      "topics": [
        "runRichCluster"
      ]
    },
    {
      "page": "term_bar",
      "title": "Term-level Bar Plot for a Specific Cluster",
      "topics": [
        "term_bar"
      ]
    },
    {
      "page": "term_dot",
      "title": "Term-level Dot Plot for a Specific Cluster",
      "topics": [
        "term_dot"
      ]
    },
    {
      "page": "term_hmap",
      "title": "Generate a Heatmap of Enrichment Results for Specific Clusters and Terms",
      "topics": [
        "term_hmap"
      ]
    }
  ],
  "_readme": "https://github.com/hurlab/richcluster/raw/HEAD/README.md",
  "_rundeps": [
    "askpass",
    "assertthat",
    "base64enc",
    "bslib",
    "ca",
    "cachem",
    "callr",
    "cli",
    "cluster",
    "codetools",
    "colorspace",
    "cpp11",
    "crosstalk",
    "curl",
    "data.table",
    "data.tree",
    "dendextend",
    "digest",
    "dotCall64",
    "dplyr",
    "egg",
    "evaluate",
    "farver",
    "fastcluster",
    "fastmap",
    "fields",
    "fontawesome",
    "foreach",
    "fs",
    "gclus",
    "generics",
    "ggdendro",
    "ggplot2",
    "glue",
    "gridExtra",
    "gtable",
    "heatmaply",
    "highr",
    "htmltools",
    "htmlwidgets",
    "httr",
    "igraph",
    "iheatmapr",
    "isoband",
    "iterators",
    "jquerylib",
    "jsonlite",
    "knitr",
    "labeling",
    "later",
    "lattice",
    "lazyeval",
    "lifecycle",
    "magrittr",
    "maps",
    "MASS",
    "Matrix",
    "memoise",
    "mgcv",
    "mime",
    "networkD3",
    "nlme",
    "openssl",
    "otel",
    "permute",
    "pillar",
    "pkgconfig",
    "plotly",
    "plyr",
    "processx",
    "promises",
    "ps",
    "purrr",
    "qap",
    "R6",
    "rappdirs",
    "RColorBrewer",
    "Rcpp",
    "registry",
    "reshape2",
    "rlang",
    "rmarkdown",
    "S7",
    "sass",
    "scales",
    "seriation",
    "spam",
    "stringi",
    "stringr",
    "sys",
    "tibble",
    "tidyr",
    "tidyselect",
    "tinytex",
    "TSP",
    "utf8",
    "vctrs",
    "vegan",
    "viridis",
    "viridisLite",
    "webshot",
    "withr",
    "xfun",
    "yaml"
  ],
  "_sysdeps": [
    {
      "shlib": "libstdc++",
      "package": "libstdc++6",
      "source": "gcc",
      "version": "14.2.0-4ubuntu2~24.04.1",
      "name": "c++",
      "homepage": "http://gcc.gnu.org/",
      "description": "GNU Standard C++ Library v3"
    }
  ],
  "_vignettes": [
    {
      "source": "workflow.Rmd",
      "filename": "workflow.html",
      "title": "Workflow: richCluster Example",
      "author": "Sarah Hong",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Load or Generate Clustering Data",
        "Cluster-Level Visualizations",
        "Term-Level Visualizations",
        "Export Results"
      ],
      "created": "2025-09-21 03:48:52",
      "modified": "2025-09-21 03:48:52",
      "commits": 1
    }
  ],
  "_score": 4.301029995663981,
  "_indexed": true,
  "_nocasepkg": "richcluster",
  "_universes": [
    "hurlab"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.0.2",
      "date": "2026-05-18T07:11:47.000Z",
      "distro": "noble",
      "arch": "aarch64",
      "commit": "8f63a0c997d8ef5e26fe50eb56bb4ae1704c7734",
      "fileid": "24cfe6c897a38ed65b9eae1bf4809bdae0f35b3f8ad5275544e58622562d30df",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/hurlab/actions/runs/26018698764"
    },
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.0.2",
      "date": "2026-05-18T07:11:51.000Z",
      "distro": "noble",
      "arch": "x86_64",
      "commit": "8f63a0c997d8ef5e26fe50eb56bb4ae1704c7734",
      "fileid": "1aecd70f28b54fe44e2c8a4b138f37abcad0feb1a7855cccc7892cb814bc7218",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/hurlab/actions/runs/26018698764"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "1.0.2",
      "date": "2026-05-18T07:11:43.000Z",
      "distro": "noble",
      "arch": "aarch64",
      "commit": "8f63a0c997d8ef5e26fe50eb56bb4ae1704c7734",
      "fileid": "73ac834341b631885cbc85ed6f5c445260f5a387feb5af9d9f9660fd10f5e26f",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/hurlab/actions/runs/26018698764"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "1.0.2",
      "date": "2026-05-18T07:11:48.000Z",
      "distro": "noble",
      "arch": "x86_64",
      "commit": "8f63a0c997d8ef5e26fe50eb56bb4ae1704c7734",
      "fileid": "c3e9d29b4546ed91f00ef3d6e7956889c6ae3fcd981a0c9b558d7a960547d13a",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/hurlab/actions/runs/26018698764"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.0.2",
      "date": "2026-05-18T07:13:19.000Z",
      "arch": "aarch64",
      "commit": "8f63a0c997d8ef5e26fe50eb56bb4ae1704c7734",
      "fileid": "695d87d439dba9f093940ecfd436f2919f00f75665a84f1c715d0c51c57154aa",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/hurlab/actions/runs/26018698764"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.0.2",
      "date": "2026-05-18T07:12:53.000Z",
      "arch": "x86_64",
      "commit": "8f63a0c997d8ef5e26fe50eb56bb4ae1704c7734",
      "fileid": "d01580229dca7c06da8c29846193008bb164305f93ea318ac55a6009784c39a7",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/hurlab/actions/runs/26018698764"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "1.0.2",
      "date": "2026-05-18T07:13:52.000Z",
      "arch": "aarch64",
      "commit": "8f63a0c997d8ef5e26fe50eb56bb4ae1704c7734",
      "fileid": "19d598febc3f310d99f25e0e88e05dc3d1e60433328794537cf2fd1e2cb04207",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/hurlab/actions/runs/26018698764"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "1.0.2",
      "date": "2026-05-18T07:17:27.000Z",
      "arch": "x86_64",
      "commit": "8f63a0c997d8ef5e26fe50eb56bb4ae1704c7734",
      "fileid": "07c13d45f0d2a9615633bf5dbfeee5d6564c85d59ec68e7e9d012f4e4f5936ef",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/hurlab/actions/runs/26018698764"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.0.2",
      "date": "2026-05-18T07:10:45.000Z",
      "arch": "x86_64",
      "commit": "8f63a0c997d8ef5e26fe50eb56bb4ae1704c7734",
      "fileid": "ad7309f1053635741d42ef61eba50c547d2364072d1715f67c2563b77ee0fcc9",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/hurlab/actions/runs/26018698764"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "1.0.2",
      "date": "2026-05-18T07:10:56.000Z",
      "arch": "x86_64",
      "commit": "8f63a0c997d8ef5e26fe50eb56bb4ae1704c7734",
      "fileid": "1ec33fbd1a821df7920e3cd3771bcdbc86d251c7d038315111b1db80eea2b6fb",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/hurlab/actions/runs/26018698764"
    },
    {
      "r": "4.6.0",
      "os": "win",
      "version": "1.0.2",
      "date": "2026-05-18T07:10:38.000Z",
      "arch": "x86_64",
      "commit": "8f63a0c997d8ef5e26fe50eb56bb4ae1704c7734",
      "fileid": "2132fb84682e15d84c46ad2bcd8cd4c11ebedc6340d5484670c3cb09b39b1e7c",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/hurlab/actions/runs/26018698764"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.0.2",
      "date": "2026-06-02T16:33:52.000Z",
      "arch": "emscripten",
      "commit": "8f63a0c997d8ef5e26fe50eb56bb4ae1704c7734",
      "fileid": "b19092dd8443a8ddf215b336871ca9330af88292445fece36d6bd63ccc3ad770",
      "status": "success",
      "buildurl": "https://github.com/r-universe/hurlab/actions/runs/26018698764"
    }
  ]
}