{
  "_id": "6adfae214d02104fb3ebf9ff",
  "Package": "treeshapesim",
  "Title": "Simulate Trees with Separately Controlled Imbalance and\nBranching Times",
  "Version": "0.2.1",
  "Authors@R": "person(\"Diogo B.\", \"Provete\", , \"dbprovete@gmail.com\", role = c(\"aut\", \"cre\"))",
  "Description": "Simulates rooted, binary, ultrametric trees in which\ntopological imbalance and the distribution of branching times\nare set by separate parameters. The topology is drawn from\nAldous' beta-splitting model and the internode intervals from a\npure-birth process in which each of k lineages splits at rate\nk^c. Because the gamma statistic depends only on the internode\nintervals and the Colless index only on the topology, beta\nmainly controls imbalance and c mainly controls gamma.",
  "License": "MIT + file LICENSE",
  "URL": "https://diogoprov.github.io/treeshapesim/,\nhttps://github.com/diogoprov/treeshapesim",
  "BugReports": "https://github.com/diogoprov/treeshapesim/issues",
  "VignetteBuilder": "knitr",
  "Config/testthat/edition": "3",
  "Encoding": "UTF-8",
  "Roxygen": "list(markdown = TRUE)",
  "RoxygenNote": "7.3.2",
  "Repository": "https://diogoprov.r-universe.dev",
  "Date/Publication": "2026-10-26 14:00:29 UTC",
  "RemoteUrl": "https://github.com/diogoprov/treeshapesim",
  "RemoteRef": "main",
  "RemoteSha": "ac28f2c041d17549d4dce07db0e73a587c0f3f2e",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-10-26 19:38:23 UTC",
    "User": "root"
  },
  "Author": "Diogo B. Provete [aut, cre]",
  "Maintainer": "Diogo B. Provete <dbprovete@gmail.com>",
  "_user": "diogoprov",
  "_type": "src",
  "_file": "treeshapesim_0.2.1.tar.gz",
  "_fileid": "https://r2.ropensci.org/b67fd7e07ad07499101e75ac80b3440518fae8bb0a64bc9230b28c64b94fbf57",
  "_filesize": 250324,
  "_sha256": "b67fd7e07ad07499101e75ac80b3440518fae8bb0a64bc9230b28c64b94fbf57",
  "_expires": "2027-02-03T19:46:38.000Z",
  "_created": "2026-10-26T19:38:23.000Z",
  "_published": "2026-10-26T19:46:40.826Z",
  "_upstream": "https://github.com/diogoprov/treeshapesim",
  "_status": "success",
  "_maintainer": {
    "name": "Diogo B. Provete",
    "email": "dbprovete@gmail.com",
    "login": "diogoprov",
    "bluesky": "@provete.bsky.social",
    "linkedin": "in/diogo-b-provete-phd-6a1673239",
    "description": "I'm a Deputy Editor - Ecology working at Wiley. I'm interested on metacommunity, macroevolution, and phylogenetic comparative methods of vertebrates",
    "uuid": 5214836
  },
  "_jobs": [
    {
      "job": 121803222436,
      "time": 141,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "12682092810"
    },
    {
      "job": 121803222068,
      "time": 127,
      "config": "linux-release-x86_64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "12682242469"
    },
    {
      "job": 121803222112,
      "time": 134,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "12682760274"
    },
    {
      "job": 121803222434,
      "time": 108,
      "config": "macos-release-arm64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "12682625362"
    },
    {
      "job": 121799528990,
      "time": 436,
      "config": "source",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "12682027502"
    },
    {
      "job": 121803222255,
      "time": 111,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "12680583855"
    },
    {
      "job": 121803222210,
      "time": 110,
      "config": "windows-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "12681853743"
    },
    {
      "job": 121803222128,
      "time": 86,
      "config": "windows-oldrel-x86_64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "12681962739"
    },
    {
      "job": 121803222059,
      "time": 108,
      "config": "windows-release-x86_64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "12681569360"
    }
  ],
  "_buildurl": "https://github.com/r-universe/diogoprov/actions/runs/40387447303",
  "_commit": {
    "id": "ac28f2c041d17549d4dce07db0e73a587c0f3f2e",
    "author": "diogoprov <dbprovete@gmail.com>",
    "committer": "diogoprov <dbprovete@gmail.com>",
    "message": "ROADMAP: release 0.2.1 e DOI\n\nCo-Authored-By: Claude Opus 5.5 <noreply@anthropic.com>\n",
    "time": 1793023229
  },
  "_distro": "resolute",
  "_host": "GitHub-Actions",
  "_registered": true,
  "_dependencies": [
    {
      "package": "ape",
      "role": "Imports"
    },
    {
      "package": "stats",
      "role": "Imports"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    },
    {
      "package": "rmarkdown",
      "role": "Suggests"
    },
    {
      "package": "testthat",
      "version": ">= 3.0.0",
      "role": "Suggests"
    },
    {
      "package": "treestats",
      "role": "Suggests"
    }
  ],
  "_owner": "diogoprov",
  "_selfowned": true,
  "_usedby": 0,
  "_updates": [
    {
      "week": "2026-43",
      "n": 4
    },
    {
      "week": "2026-44",
      "n": 11
    }
  ],
  "_tags": [
    {
      "name": "0.1.0",
      "date": "2026-10-25"
    },
    {
      "name": "0.2.0",
      "date": "2026-10-26"
    },
    {
      "name": "0.2.1",
      "date": "2026-10-26"
    }
  ],
  "_topics": [
    "phylogenetics",
    "phylogenetic-trees",
    "tree-shape",
    "tree-balance",
    "tree-imbalance",
    "gamma-statistic",
    "colless-index",
    "beta-splitting",
    "diversification",
    "simulation",
    "macroevolution",
    "community-phylogenetics",
    "r-universe"
  ],
  "_stars": 0,
  "_contributors": [
    {
      "user": "diogoprov",
      "count": 21,
      "uuid": 5214836
    }
  ],
  "_userbio": {
    "uuid": 5214836,
    "type": "user",
    "name": "Dr. Diogo B. Provete",
    "followers": 45,
    "description": "I'm a Deputy Editor - Ecology working at Wiley. I'm interested on metacommunity, macroevolution, and phylogenetic comparative methods of vertebrates"
  },
  "_downloads": {
    "count": 0,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/treeshapesim"
  },
  "_devurl": "https://github.com/diogoprov/treeshapesim",
  "_pkgdown": "https://diogoprov.github.io/treeshapesim/",
  "_searchresults": 0,
  "_rbuild": "4.6.1",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/manual.pdf",
    "extra/NEWS.html",
    "extra/NEWS.txt",
    "extra/readme.html",
    "extra/readme.md",
    "extra/treeshapesim.html",
    "LICENSE"
  ],
  "_cranurl": false,
  "_exports": [
    "assign_ages",
    "calibrate_shape",
    "fit_shape",
    "intervals_lineage_rate",
    "rtopology_beta",
    "shape_grid",
    "shape_params",
    "sim_tree_shape",
    "sim_tree_target",
    "tree_shape"
  ],
  "_help": [
    {
      "page": "assign_ages",
      "title": "Assign node ages to a topology from internode intervals",
      "topics": [
        "assign_ages"
      ]
    },
    {
      "page": "calibrate_shape",
      "title": "Calibrate the shape parameters for a number of tips",
      "topics": [
        "calibrate_shape"
      ]
    },
    {
      "page": "fit_shape",
      "title": "Estimate the shape parameters of a tree",
      "topics": [
        "fit_shape"
      ]
    },
    {
      "page": "intervals_lineage_rate",
      "title": "Internode intervals of a pure-birth process with lineage-dependent rates",
      "topics": [
        "intervals_lineage_rate"
      ]
    },
    {
      "page": "rtopology_beta",
      "title": "Random topology under Aldous' beta-splitting model",
      "topics": [
        "rtopology_beta"
      ]
    },
    {
      "page": "shape_grid",
      "title": "Grid of tree shapes",
      "topics": [
        "shape_grid"
      ]
    },
    {
      "page": "shape_params",
      "title": "Shape parameters that give target mean values of gamma and Colless",
      "topics": [
        "shape_params"
      ]
    },
    {
      "page": "sim_tree_shape",
      "title": "Ultrametric trees with given imbalance and branching-time parameters",
      "topics": [
        "sim_tree_shape"
      ]
    },
    {
      "page": "sim_tree_target",
      "title": "Simulate trees near target values of gamma and Colless",
      "topics": [
        "sim_tree_target"
      ]
    },
    {
      "page": "tree_shape",
      "title": "Gamma statistic and Colless index of a tree",
      "topics": [
        "tree_shape"
      ]
    }
  ],
  "_pkglogo": "https://github.com/diogoprov/treeshapesim/raw/main/man/figures/logo.png",
  "_readme": "https://github.com/diogoprov/treeshapesim/raw/main/README.md",
  "_rundeps": [
    "ape",
    "digest",
    "lattice",
    "nlme",
    "Rcpp"
  ],
  "_vignettes": [
    {
      "source": "treeshapesim.Rmd",
      "filename": "treeshapesim.html",
      "title": "Simulating trees with controlled shape",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Two shape statistics, two processes",
        "Reaching target values",
        "A grid of tree shapes",
        "Placing an empirical tree on the same scale",
        "References"
      ],
      "created": "2026-10-25 23:47:23",
      "modified": "2026-10-26 12:53:50",
      "commits": 2
    }
  ],
  "_score": 3,
  "_indexed": true,
  "_nocasepkg": "treeshapesim",
  "_universes": [
    "diogoprov"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "0.2.1",
      "date": "2026-10-26T19:40:39.000Z",
      "distro": "resolute",
      "commit": "ac28f2c041d17549d4dce07db0e73a587c0f3f2e",
      "fileid": "https://r2.ropensci.org/df5643aca365c35cb0eba93166e030f50c1d36a2cb82d83cfde624e4618834e3",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/diogoprov/actions/runs/40387447303"
    },
    {
      "r": "4.6.1",
      "os": "linux",
      "version": "0.2.1",
      "date": "2026-10-26T19:40:30.000Z",
      "distro": "resolute",
      "commit": "ac28f2c041d17549d4dce07db0e73a587c0f3f2e",
      "fileid": "https://r2.ropensci.org/e613649486090c2bd60c4e191a05bac39870d1a05c080d41088783c15135383e",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/diogoprov/actions/runs/40387447303"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "0.2.1",
      "date": "2026-10-26T19:46:00.000Z",
      "commit": "ac28f2c041d17549d4dce07db0e73a587c0f3f2e",
      "fileid": "https://r2.ropensci.org/74ef07d2d29a01db87c0a9eba7c5073813843330ea7e0668efd1f4b9ef798494",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/diogoprov/actions/runs/40387447303"
    },
    {
      "r": "4.6.1",
      "os": "mac",
      "version": "0.2.1",
      "date": "2026-10-26T19:45:57.000Z",
      "commit": "ac28f2c041d17549d4dce07db0e73a587c0f3f2e",
      "fileid": "https://r2.ropensci.org/60839c7be62f78354210d4bf3e2e6a503d63e52bd6dfe7d5e7f6406155a7ba4d",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/diogoprov/actions/runs/40387447303"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "0.2.1",
      "date": "2026-10-26T19:40:29.000Z",
      "commit": "ac28f2c041d17549d4dce07db0e73a587c0f3f2e",
      "fileid": "https://r2.ropensci.org/5c9dce381550425d050895f71a52211ba74568a45eb57bbb156ee30aca0a96fa",
      "status": "success",
      "buildurl": "https://github.com/r-universe/diogoprov/actions/runs/40387447303"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "0.2.1",
      "date": "2026-10-26T19:40:05.000Z",
      "commit": "ac28f2c041d17549d4dce07db0e73a587c0f3f2e",
      "fileid": "https://r2.ropensci.org/4acb8e8c45aac240c61008a0a725b5814c61ac4962b9d524c835ff8eb13456a8",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/diogoprov/actions/runs/40387447303"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "0.2.1",
      "date": "2026-10-26T19:39:43.000Z",
      "commit": "ac28f2c041d17549d4dce07db0e73a587c0f3f2e",
      "fileid": "https://r2.ropensci.org/d42fcf078930ceb74254b789e71a53affc60b94a6791d4dd1ce2f34962faee24",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/diogoprov/actions/runs/40387447303"
    },
    {
      "r": "4.6.1",
      "os": "win",
      "version": "0.2.1",
      "date": "2026-10-26T19:39:59.000Z",
      "commit": "ac28f2c041d17549d4dce07db0e73a587c0f3f2e",
      "fileid": "https://r2.ropensci.org/7514de45aeb522ecdc0377e97372aacd7cdd27acda51c37e9f511546ff6f64ee",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/diogoprov/actions/runs/40387447303"
    }
  ]
}