{
  "_id": "6a106c23acfb0bcc41caa792",
  "Package": "JANE",
  "Title": "Just Another Latent Space Network Clustering Algorithm",
  "Version": "2.1.0",
  "Authors@R": "c(person(\"Alan\", \"Arakkal\", , \"alan-arakkal@uiowa.edu\",\nrole = c(\"aut\", \"cre\", \"cph\"),\ncomment = c(ORCID = \"0000-0002-7001-493X\") ),\nperson(\"Daniel\", \"Sewell\", , \"daniel-sewell@uiowa.edu\",\nrole = \"aut\",\ncomment = c(ORCID = \"0000-0002-9238-4026\") ))",
  "Description": "Fit latent space network cluster models using an\nexpectation-maximization algorithm. Enables flexible modeling\nof unweighted or weighted network data (with or without noise\nedges), supporting both directed and undirected networks (with\nor without degree and strength heterogeneity). Designed to\nhandle large networks efficiently, it allows users to explore\nnetwork structure through latent space representations,\nidentify clusters (i.e., community detection) within network\ndata, and simulate networks with varying clustering,\nconnectivity patterns, and noise edges. Methodology for the\nimplementation is described in Arakkal and Sewell (2025)\n<doi:10.1016/j.csda.2025.108228>.",
  "License": "GPL (>= 3)",
  "Encoding": "UTF-8",
  "Roxygen": "list(markdown = TRUE)",
  "RoxygenNote": "7.3.3",
  "URL": "https://a1arakkal.github.io/JANE/,\nhttps://github.com/a1arakkal/JANE",
  "BugReports": "https://github.com/a1arakkal/JANE/issues",
  "Config/testthat/edition": "3",
  "VignetteBuilder": "knitr",
  "Config/pak/sysreqs": "libglpk-dev libxml2-dev",
  "Repository": "https://a1arakkal.r-universe.dev",
  "Date/Publication": "2025-12-08 18:12:19 UTC",
  "RemoteUrl": "https://github.com/a1arakkal/jane",
  "RemoteRef": "HEAD",
  "RemoteSha": "643c9082e20bce1c5d5a42c0e919b7ddc8758456",
  "NeedsCompilation": "yes",
  "Packaged": {
    "Date": "2026-05-07 08:57:20 UTC",
    "User": "root"
  },
  "Author": "Alan Arakkal [aut, cre, cph] (ORCID:\n<https://orcid.org/0000-0002-7001-493X>),\nDaniel Sewell [aut] (ORCID: <https://orcid.org/0000-0002-9238-4026>)",
  "Maintainer": "Alan Arakkal <alan-arakkal@uiowa.edu>",
  "MD5sum": "478c42a697b0de841498ee9dc0caf917",
  "_user": "a1arakkal",
  "_type": "src",
  "_file": "JANE_2.1.0.tar.gz",
  "_fileid": "2f25976d768b576ba3b1f64b676b5890e3badb1063657d0e406e2030d1f58aef",
  "_filesize": 392513,
  "_sha256": "2f25976d768b576ba3b1f64b676b5890e3badb1063657d0e406e2030d1f58aef",
  "_created": "2026-05-07T08:57:20.000Z",
  "_published": "2026-05-22T14:45:55.400Z",
  "_distro": "noble",
  "_jobs": [
    {
      "job": 77402851918,
      "time": 419,
      "config": "linux-devel-arm64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "6851098845"
    },
    {
      "job": 77402851683,
      "time": 428,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "6851101248"
    },
    {
      "job": 77402852011,
      "time": 436,
      "config": "linux-release-arm64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "6851104109"
    },
    {
      "job": 77402852249,
      "time": 451,
      "config": "linux-release-x86_64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "6851109733"
    },
    {
      "job": 77402852054,
      "time": 356,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "6851070152"
    },
    {
      "job": 77402851605,
      "time": 795,
      "config": "macos-oldrel-x86_64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "6851216420"
    },
    {
      "job": 77402852125,
      "time": 423,
      "config": "macos-release-arm64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "6851088908"
    },
    {
      "job": 77402851646,
      "time": 1127,
      "config": "macos-release-x86_64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "6851329231"
    },
    {
      "job": 77402851206,
      "time": 342,
      "config": "source",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "6850950262"
    },
    {
      "job": 77402850809,
      "time": 190,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7163331832"
    },
    {
      "job": 77402851498,
      "time": 611,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "6851164558"
    },
    {
      "job": 77402851616,
      "time": 521,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "6851133451"
    },
    {
      "job": 77402852142,
      "time": 558,
      "config": "windows-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "6851146042"
    }
  ],
  "_buildurl": "https://github.com/r-universe/a1arakkal/actions/runs/25485940599",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_upstream": "https://github.com/a1arakkal/jane",
  "_commit": {
    "id": "643c9082e20bce1c5d5a42c0e919b7ddc8758456",
    "author": "a1arakkal <alan-arakkal@uiowa.edu>",
    "committer": "a1arakkal <alan-arakkal@uiowa.edu>",
    "message": "update RoxygenNote version in DESCRIPTION\n",
    "time": 1765217539
  },
  "_maintainer": {
    "name": "Alan Arakkal",
    "email": "alan-arakkal@uiowa.edu",
    "login": "a1arakkal",
    "uuid": 56091586,
    "orcid": "0000-0002-7001-493X"
  },
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 4.1.0",
      "role": "Depends"
    },
    {
      "package": "Rcpp",
      "role": "LinkingTo"
    },
    {
      "package": "RcppArmadillo",
      "role": "LinkingTo"
    },
    {
      "package": "Rcpp",
      "version": ">= 1.0.10",
      "role": "Imports"
    },
    {
      "package": "Matrix",
      "role": "Imports"
    },
    {
      "package": "extraDistr",
      "role": "Imports"
    },
    {
      "package": "mclust",
      "role": "Imports"
    },
    {
      "package": "scales",
      "role": "Imports"
    },
    {
      "package": "aricode",
      "role": "Imports"
    },
    {
      "package": "stringdist",
      "role": "Imports"
    },
    {
      "package": "utils",
      "role": "Imports"
    },
    {
      "package": "splines",
      "role": "Imports"
    },
    {
      "package": "rlang",
      "role": "Imports"
    },
    {
      "package": "future.apply",
      "role": "Imports"
    },
    {
      "package": "future",
      "role": "Imports"
    },
    {
      "package": "progressr",
      "role": "Imports"
    },
    {
      "package": "progress",
      "role": "Imports"
    },
    {
      "package": "igraph",
      "role": "Imports"
    },
    {
      "package": "methods",
      "role": "Imports"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    },
    {
      "package": "rmarkdown",
      "role": "Suggests"
    },
    {
      "package": "testthat",
      "version": ">= 3.0.0",
      "role": "Suggests"
    }
  ],
  "_owner": "a1arakkal",
  "_selfowned": true,
  "_usedby": 0,
  "_updates": [
    {
      "week": "2025-21",
      "n": 4
    },
    {
      "week": "2025-22",
      "n": 1
    },
    {
      "week": "2025-23",
      "n": 9
    },
    {
      "week": "2025-28",
      "n": 1
    },
    {
      "week": "2025-29",
      "n": 3
    },
    {
      "week": "2025-30",
      "n": 1
    },
    {
      "week": "2025-31",
      "n": 22
    },
    {
      "week": "2025-32",
      "n": 1
    },
    {
      "week": "2025-34",
      "n": 2
    },
    {
      "week": "2025-37",
      "n": 2
    },
    {
      "week": "2025-38",
      "n": 3
    },
    {
      "week": "2025-42",
      "n": 1
    },
    {
      "week": "2025-43",
      "n": 5
    },
    {
      "week": "2025-45",
      "n": 6
    },
    {
      "week": "2025-50",
      "n": 1
    }
  ],
  "_tags": [
    {
      "name": "v1.1.0",
      "date": "2025-06-06"
    },
    {
      "name": "v2.0.0",
      "date": "2025-07-30"
    },
    {
      "name": "v2.1.0",
      "date": "2025-11-03"
    }
  ],
  "_stars": 1,
  "_contributors": [
    {
      "user": "a1arakkal",
      "count": 206,
      "uuid": 56091586
    },
    {
      "user": "henrikbengtsson",
      "count": 1,
      "uuid": 1616850
    }
  ],
  "_userbio": {
    "uuid": 56091586,
    "type": "user",
    "name": "Alan Arakkal"
  },
  "_downloads": {
    "count": 190,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/JANE"
  },
  "_devurl": "https://github.com/a1arakkal/jane",
  "_pkgdown": "https://a1arakkal.github.io/JANE/",
  "_searchresults": 14,
  "_topics": [
    "openblas",
    "cpp",
    "openmp"
  ],
  "_rbuild": "4.6.0",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/JANE.html",
    "extra/NEWS.html",
    "extra/NEWS.txt",
    "extra/readme.html",
    "extra/readme.md",
    "manual.pdf"
  ],
  "_homeurl": "https://github.com/a1arakkal/jane",
  "_realowner": "a1arakkal",
  "_cranurl": true,
  "_releases": [
    {
      "version": "0.1.1",
      "date": "2024-11-14"
    },
    {
      "version": "0.2.1",
      "date": "2024-12-19"
    },
    {
      "version": "1.0.0",
      "date": "2025-03-22"
    },
    {
      "version": "1.1.0",
      "date": "2025-06-07"
    },
    {
      "version": "2.0.0",
      "date": "2025-08-01"
    },
    {
      "version": "2.1.0",
      "date": "2025-11-03"
    }
  ],
  "_exports": [
    "JANE",
    "sim_A",
    "specify_initial_values",
    "specify_priors"
  ],
  "_help": [
    {
      "page": "JANE",
      "title": "Fit JANE",
      "topics": [
        "JANE"
      ]
    },
    {
      "page": "plot.JANE",
      "title": "Plot JANE fits",
      "topics": [
        "plot.JANE"
      ]
    },
    {
      "page": "sim_A",
      "title": "Simulate unweighted or weighted networks, with or without noise edges, from latent space cluster models",
      "topics": [
        "sim_A"
      ]
    },
    {
      "page": "specify_initial_values",
      "title": "Specify starting values for EM algorithm",
      "topics": [
        "specify_initial_values"
      ]
    },
    {
      "page": "specify_priors",
      "title": "Specify prior hyperparameters for EM algorithm",
      "topics": [
        "specify_priors"
      ]
    },
    {
      "page": "summary.JANE",
      "title": "Summarizing JANE fits",
      "topics": [
        "summary.JANE"
      ]
    }
  ],
  "_readme": "https://github.com/a1arakkal/jane/raw/HEAD/README.md",
  "_rundeps": [
    "aricode",
    "cli",
    "codetools",
    "cpp11",
    "crayon",
    "digest",
    "extraDistr",
    "farver",
    "future",
    "future.apply",
    "globals",
    "glue",
    "hms",
    "igraph",
    "labeling",
    "lattice",
    "lifecycle",
    "listenv",
    "magrittr",
    "Matrix",
    "mclust",
    "parallelly",
    "pkgconfig",
    "prettyunits",
    "progress",
    "progressr",
    "R6",
    "RColorBrewer",
    "Rcpp",
    "RcppArmadillo",
    "rlang",
    "scales",
    "stringdist",
    "vctrs",
    "viridisLite"
  ],
  "_sysdeps": [
    {
      "shlib": "liblapack",
      "package": "libopenblas0-pthread",
      "source": "openblas",
      "version": "0.3.26+ds-1ubuntu0.1",
      "name": "openblas",
      "homepage": "https://www.openblas.net/",
      "description": "Optimized BLAS (linear algebra) library (shared lib, pthread)"
    },
    {
      "shlib": "libblas",
      "package": "libopenblas0-pthread",
      "source": "openblas",
      "version": "0.3.26+ds-1ubuntu0.1",
      "name": "openblas",
      "homepage": "https://www.openblas.net/",
      "description": "Optimized BLAS (linear algebra) library (shared lib, pthread)"
    },
    {
      "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"
    },
    {
      "shlib": "libgomp",
      "package": "libgomp1",
      "source": "gcc",
      "version": "14.2.0-4ubuntu2~24.04.1",
      "name": "openmp",
      "homepage": "http://gcc.gnu.org/",
      "description": "GCC OpenMP (GOMP) support library"
    }
  ],
  "_vignettes": [
    {
      "source": "JANE-User-Guide.Rmd",
      "filename": "JANE-User-Guide.html",
      "title": "JANE User Guide",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Description",
        "Features",
        "Getting Started",
        "Installation",
        "Documentation",
        "Fitting JANE on networks without noise edges",
        "Available models",
        "model = \"NDH\"",
        "model = \"RS\"",
        "model = \"RSR\"",
        "Fitting JANE on networks with noise edges",
        "family = \"poisson\"",
        "family = \"lognormal\"",
        "family = \"bernoulli\" (default)",
        "guess_noise_weights",
        "Simulating networks",
        "Model selection criteria for choosing the number of clusters",
        "Initialization of EM algorithm",
        "Specification of prior hyperparameters",
        "Prior distributions",
        "Prior on $\\boldsymbol{\\mu}_k$ and $\\boldsymbol{\\Omega}_k$",
        "Prior on $\\boldsymbol{p}$",
        "Prior on $\\boldsymbol{\\beta}_{LR}$",
        "Prior on $q$",
        "Zero-truncated Poisson",
        "Prior on $\\boldsymbol{\\beta}_{GLM}$",
        "Log-normal",
        "Prior on $\\tau^2_{\\text{weights}}$",
        "Prior on $\\tau^2_{\\text{noise weights}}$",
        "Default hyperparameters",
        "Example of specifying hyperparameters for a single combination of $K$ and $D$",
        "Example of specifying hyperparameters for multiple combinations of $K$ and $D$",
        "Nested list",
        "Unevaluated calls",
        "Parallel implementation of JANE()",
        "Case-control implementation of JANE()",
        "Using S3 methods with JANE objects",
        "print()",
        "summary()",
        "plot()",
        "Latent space clustering (default type = \"lsnc\")",
        "Misclassified actors (type = \"misclassified\")",
        "Clustering uncertainty (type = \"uncertainty\")",
        "EM trace plot (type = \"trace_plot\")",
        "Additional options",
        "References"
      ],
      "created": "2025-07-29 20:25:43",
      "modified": "2025-09-12 15:39:41",
      "commits": 5
    }
  ],
  "_score": 5.021189299069938,
  "_indexed": true,
  "_nocasepkg": "jane",
  "_universes": [
    "a1arakkal"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "2.1.0",
      "date": "2026-05-07T09:00:47.000Z",
      "distro": "noble",
      "arch": "aarch64",
      "commit": "643c9082e20bce1c5d5a42c0e919b7ddc8758456",
      "fileid": "3347308eb8b01470adef05d0176ef922bf3d3eb2adca097851752177a2bb8cd2",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/a1arakkal/actions/runs/25485940599"
    },
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "2.1.0",
      "date": "2026-05-07T09:00:42.000Z",
      "distro": "noble",
      "arch": "x86_64",
      "commit": "643c9082e20bce1c5d5a42c0e919b7ddc8758456",
      "fileid": "6a9f81120760917163b6146eb5b41c6a274cbf9e0e58a17b34c963d66b902ba9",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/a1arakkal/actions/runs/25485940599"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "2.1.0",
      "date": "2026-05-07T09:00:48.000Z",
      "distro": "noble",
      "arch": "aarch64",
      "commit": "643c9082e20bce1c5d5a42c0e919b7ddc8758456",
      "fileid": "5f8b86b0d8b2a7393b849c6ce521adb7d672b65bf7d0fb60c1c76d767cc9cb36",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/a1arakkal/actions/runs/25485940599"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "2.1.0",
      "date": "2026-05-07T09:00:53.000Z",
      "distro": "noble",
      "arch": "x86_64",
      "commit": "643c9082e20bce1c5d5a42c0e919b7ddc8758456",
      "fileid": "1337e83f0b0578265fc54a7e7a5a350faed7daeb077a5ad01aaecdb95578497c",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/a1arakkal/actions/runs/25485940599"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "2.1.0",
      "date": "2026-05-07T09:01:02.000Z",
      "arch": "aarch64",
      "commit": "643c9082e20bce1c5d5a42c0e919b7ddc8758456",
      "fileid": "76904ff1975b4bdf507ecb74114cd3a7f52b106922dd8bed8586c3a47725981e",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/a1arakkal/actions/runs/25485940599"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "2.1.0",
      "date": "2026-05-07T09:03:39.000Z",
      "arch": "x86_64",
      "commit": "643c9082e20bce1c5d5a42c0e919b7ddc8758456",
      "fileid": "2b1b5e52df4a49639c302b82aa0501c3cac99252a06e17a47dfa6108e79e2fe9",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/a1arakkal/actions/runs/25485940599"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "2.1.0",
      "date": "2026-05-07T09:01:07.000Z",
      "arch": "aarch64",
      "commit": "643c9082e20bce1c5d5a42c0e919b7ddc8758456",
      "fileid": "a818daf113796dff1cc4fc231ef69553829f5459a166dee1a91c5b341e953a33",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/a1arakkal/actions/runs/25485940599"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "2.1.0",
      "date": "2026-05-07T09:03:58.000Z",
      "arch": "x86_64",
      "commit": "643c9082e20bce1c5d5a42c0e919b7ddc8758456",
      "fileid": "8a4cdad3c9bc83814c085307afc2436fa233010cbe536d58a4091384d3e6fa69",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/a1arakkal/actions/runs/25485940599"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "2.1.0",
      "date": "2026-05-07T09:00:06.000Z",
      "arch": "x86_64",
      "commit": "643c9082e20bce1c5d5a42c0e919b7ddc8758456",
      "fileid": "5cde861aa9c8f315baa64a44f752d722749e4e9ce16df1634c613eba30d34344",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/a1arakkal/actions/runs/25485940599"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "2.1.0",
      "date": "2026-05-07T08:59:50.000Z",
      "arch": "x86_64",
      "commit": "643c9082e20bce1c5d5a42c0e919b7ddc8758456",
      "fileid": "b760683eb4e1c16893505da0d400374619b79b3921d5f0f18a968fa6cd01b35e",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/a1arakkal/actions/runs/25485940599"
    },
    {
      "r": "4.6.0",
      "os": "win",
      "version": "2.1.0",
      "date": "2026-05-07T09:00:11.000Z",
      "arch": "x86_64",
      "commit": "643c9082e20bce1c5d5a42c0e919b7ddc8758456",
      "fileid": "e29e6e4d7db25cef7954cc41b647d76fcd571779081260e30c2e6150a1ead276",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/a1arakkal/actions/runs/25485940599"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "2.1.0",
      "date": "2026-05-22T14:44:22.000Z",
      "arch": "emscripten",
      "commit": "643c9082e20bce1c5d5a42c0e919b7ddc8758456",
      "fileid": "36d9843b2437b4b5780d399cf427c7066b26094642bc1a51fc526a62fe52f95c",
      "status": "success",
      "buildurl": "https://github.com/r-universe/a1arakkal/actions/runs/25485940599"
    }
  ]
}