{
  "_id": "6ac21382773a0037682c17c7",
  "Package": "nicheROVER",
  "Title": "Niche Region and Niche Overlap Metrics for Multidimensional\nEcological Niches",
  "Version": "1.1.2",
  "Date": "2023-10-12",
  "Authors@R": "c(person(\"Martin\", \"Lysy\", role = c(\"aut\", \"cre\"),\nemail = \"mlysy@uwaterloo.ca\"),\nperson(\"Ashley D.\", \"Stasko\", role = \"aut\"),\nperson(\"Heidi K.\", \"Swanson\", role = \"aut\"))",
  "Description": "Implementation of a probabilistic method to calculate\n'nicheROVER' (_niche_ _r_egion and niche _over_lap) metrics\nusing multidimensional niche indicator data (e.g., stable\nisotopes, environmental variables, etc.). The niche region is\ndefined as the joint probability density function of the\nmultidimensional niche indicators at a user-defined probability\nalpha (e.g., 95%).  Uncertainty is accounted for in a Bayesian\nframework, and the method can be extended to three or more\nindicator dimensions.  It provides directional estimates of\nniche overlap, accounts for species-specific distributions in\nmultivariate niche space, and produces unique and consistent\nbivariate projections of the multivariate niche region.  The\narticle by Swanson et al. (2015) <doi:10.1890/14-0235.1>\nprovides a detailed description of the methodology.  See the\npackage vignette for a worked example using fish stable isotope\ndata.",
  "URL": "https://github.com/mlysy/nicheROVER",
  "BugReports": "https://github.com/mlysy/nicheROVER/issues",
  "VignetteBuilder": "knitr",
  "License": "GPL-3",
  "LazyData": "true",
  "Encoding": "UTF-8",
  "RoxygenNote": "7.2.3",
  "Roxygen": "list(markdown = TRUE)",
  "Repository": "https://mlysy.r-universe.dev",
  "Date/Publication": "2023-10-13 15:50:55 UTC",
  "RemoteUrl": "https://github.com/mlysy/nicherover",
  "RemoteRef": "HEAD",
  "RemoteSha": "5979bd1b04365132f0424edd65c9da5cf256d15b",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-10-04 08:36:16 UTC",
    "User": "root"
  },
  "Author": "Martin Lysy [aut, cre],\nAshley D. Stasko [aut],\nHeidi K. Swanson [aut]",
  "Maintainer": "Martin Lysy <mlysy@uwaterloo.ca>",
  "_user": "mlysy",
  "_type": "src",
  "_file": "nicheROVER_1.1.2.tar.gz",
  "_fileid": "https://r2.ropensci.org/077bfe095fec976919f916f2bb45b5b23df878f3f158bef84b8cb0fe946de804",
  "_filesize": 1130114,
  "_sha256": "077bfe095fec976919f916f2bb45b5b23df878f3f158bef84b8cb0fe946de804",
  "_expires": "2027-01-12T08:51:12.000Z",
  "_created": "2026-10-04T08:36:16.000Z",
  "_published": "2026-10-04T08:51:14.743Z",
  "_jobs": [
    {
      "job": 111398465418,
      "time": 193,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "11298378907"
    },
    {
      "job": 111398465421,
      "time": 104,
      "config": "linux-release-x86_64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11298403517"
    },
    {
      "job": 111398465413,
      "time": 105,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "11297804357"
    },
    {
      "job": 111398465474,
      "time": 76,
      "config": "macos-release-arm64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11298855983"
    },
    {
      "job": 111398057514,
      "time": 149,
      "config": "source",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11297249849"
    },
    {
      "job": 111398465416,
      "time": 69,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "11298363760"
    },
    {
      "job": 111398465372,
      "time": 75,
      "config": "windows-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "11298585356"
    },
    {
      "job": 111398465448,
      "time": 57,
      "config": "windows-oldrel-x86_64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "11298650173"
    },
    {
      "job": 111398465458,
      "time": 64,
      "config": "windows-release-x86_64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11297598755"
    }
  ],
  "_host": "GitHub-Actions",
  "_buildurl": "https://github.com/r-universe/mlysy/actions/runs/37189320364",
  "_status": "success",
  "_upstream": "https://github.com/mlysy/nicherover",
  "_commit": {
    "id": "5979bd1b04365132f0424edd65c9da5cf256d15b",
    "author": "mlysy <mlysy@users.noreply.github.com>",
    "committer": "mlysy <mlysy@users.noreply.github.com>",
    "message": "fixed man formatting issues\n",
    "time": 1697212255
  },
  "_maintainer": {
    "name": "Martin Lysy",
    "email": "mlysy@uwaterloo.ca",
    "login": "mlysy",
    "description": "Martin Lysy",
    "uuid": 10173557
  },
  "_distro": "resolute",
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 1.9.0",
      "role": "Depends"
    },
    {
      "package": "graphics",
      "role": "Imports"
    },
    {
      "package": "stats",
      "role": "Imports"
    },
    {
      "package": "utils",
      "role": "Imports"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    },
    {
      "package": "rmarkdown",
      "role": "Suggests"
    }
  ],
  "_owner": "mlysy",
  "_selfowned": true,
  "_usedby": 2,
  "_updates": [],
  "_tags": [],
  "_stars": 10,
  "_contributors": [
    {
      "user": "mlysy",
      "count": 29,
      "uuid": 10173557
    }
  ],
  "_userbio": {
    "uuid": 10173557,
    "type": "user",
    "name": "mlysy",
    "followers": 41,
    "description": "Martin Lysy"
  },
  "_downloads": {
    "count": 365,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/nicheROVER"
  },
  "_mentions": 18,
  "_devurl": "https://github.com/mlysy/nicherover",
  "_searchresults": 59,
  "_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/nicheROVER.html",
    "extra/readme.html",
    "extra/readme.md"
  ],
  "_homeurl": "https://github.com/mlysy/nicherover",
  "_realowner": "mlysy",
  "_cranurl": true,
  "_releases": [
    {
      "version": "1.0",
      "date": "2014-07-25"
    },
    {
      "version": "1.1.0",
      "date": "2021-06-03"
    },
    {
      "version": "1.1.2",
      "date": "2023-10-13"
    }
  ],
  "_exports": [
    "ellipse",
    "niche.par.plot",
    "niche.plot",
    "niche.runif",
    "niche.size",
    "niiw.post",
    "niw.coeffs",
    "niw.mom",
    "niw.post",
    "overlap",
    "overlap.plot",
    "overlap.sphere",
    "overlap.unif",
    "rniw",
    "rwish"
  ],
  "_datasets": [
    {
      "name": "fish",
      "title": "Fish stable isotope dataset.",
      "object": "fish",
      "class": [
        "data.frame"
      ],
      "fields": [
        "species",
        "D15N",
        "D13C",
        "D34S"
      ],
      "rows": 277,
      "table": true,
      "tojson": true
    }
  ],
  "_help": [
    {
      "page": "nicheROVER-package",
      "title": "(Niche) (R)egion and Niche (Over)lap Metrics for Multidimensional Ecological Niches.",
      "topics": [
        "nicheROVER-package",
        "nicheROVER"
      ]
    },
    {
      "page": "ellipse",
      "title": "Point coordinates for a 2-D ellipse.",
      "topics": [
        "ellipse"
      ]
    },
    {
      "page": "fish",
      "title": "Fish stable isotope dataset.",
      "topics": [
        "fish"
      ]
    },
    {
      "page": "niche.par.plot",
      "title": "Plot for niche parameters.",
      "topics": [
        "niche.par.plot"
      ]
    },
    {
      "page": "niche.plot",
      "title": "Plot for 2-d projection of niche regions.",
      "topics": [
        "niche.plot"
      ]
    },
    {
      "page": "niche.runif",
      "title": "Uniform sampling from an elliptical niche region.",
      "topics": [
        "niche.runif"
      ]
    },
    {
      "page": "niche.size",
      "title": "Calculate the size of an elliptical niche region.",
      "topics": [
        "niche.size"
      ]
    },
    {
      "page": "niiw.post",
      "title": "Random draws from the posterior distribution with Normal-Independent-Inverse-Wishart (NIIW) prior.",
      "topics": [
        "niiw.post"
      ]
    },
    {
      "page": "niw.coeffs",
      "title": "Posterior coefficients of the Normal-Inverse-Wishart distribution with its conjugate prior.",
      "topics": [
        "niw.coeffs"
      ]
    },
    {
      "page": "niw.mom",
      "title": "Mean and variance of the Normal-Inverse-Wishart distribution.",
      "topics": [
        "niw.mom"
      ]
    },
    {
      "page": "niw.post",
      "title": "Random draws from the posterior distribution with Normal-Inverse-Wishart (NIW) prior.",
      "topics": [
        "niw.post"
      ]
    },
    {
      "page": "overlap",
      "title": "Monte Carlo calculation of niche region overlap metrics.",
      "topics": [
        "overlap"
      ]
    },
    {
      "page": "overlap.plot",
      "title": "Plot the overlap metric.",
      "topics": [
        "overlap.plot"
      ]
    },
    {
      "page": "overlap.unif",
      "title": "Overlap calculation for uniform niche regions.",
      "topics": [
        "overlap.sphere",
        "overlap.unif"
      ]
    },
    {
      "page": "rniw",
      "title": "Random draws from a Normal-Inverse-Wishart distribution.",
      "topics": [
        "rniw"
      ]
    },
    {
      "page": "rwish",
      "title": "Random draws from a Wishart (or Inverse-Wishart) distribution.",
      "topics": [
        "rwish"
      ]
    }
  ],
  "_readme": "https://github.com/mlysy/nicherover/raw/HEAD/README.md",
  "_rundeps": [],
  "_vignettes": [
    {
      "source": "ecol-vignette.Rmd",
      "filename": "ecol-vignette.html",
      "title": "An Ecologist's Guide to nicheROVER: Niche Region and Niche Overlap Metrics for Multidimensional Ecological Niches",
      "author": "Martin Lysy, Heidi Swanson",
      "engine": "knitr::rmarkdown",
      "headings": [
        "1. Preliminaries",
        "2. Formatting data for use in nicheROVER",
        "3. Generate the posterior distributions of $\\mu$ (mean) and $\\Sigma$ (variance) for isotope values for each species with the default prior",
        "4. Create 2-d projections of a subset of niche regions",
        "5. Calculate and display niche overlap estimates",
        "6.  Calculate and display niche size estimates"
      ],
      "created": "2017-12-05 04:15:43",
      "modified": "2021-05-13 19:58:46",
      "commits": 4
    }
  ],
  "_score": 7.247973266361807,
  "_indexed": true,
  "_nocasepkg": "nicherover",
  "_universes": [
    "mlysy"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.1.2",
      "date": "2026-10-04T08:39:23.000Z",
      "distro": "resolute",
      "commit": "5979bd1b04365132f0424edd65c9da5cf256d15b",
      "fileid": "https://r2.ropensci.org/cc1449042b28682fcc0e565ccb0b7dd6d4b7a584755bad346491f943a011f8be",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/mlysy/actions/runs/37189320364"
    },
    {
      "r": "4.6.1",
      "os": "linux",
      "version": "1.1.2",
      "date": "2026-10-04T08:38:00.000Z",
      "distro": "resolute",
      "commit": "5979bd1b04365132f0424edd65c9da5cf256d15b",
      "fileid": "https://r2.ropensci.org/ff98c29b50a47dc1c5822ea8f1f319c9c36b93af696df35fb7c9d7148b3db407",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/mlysy/actions/runs/37189320364"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.1.2",
      "date": "2026-10-04T08:50:32.000Z",
      "commit": "5979bd1b04365132f0424edd65c9da5cf256d15b",
      "fileid": "https://r2.ropensci.org/ea194186ddfeb8cebdbabe0597a927e5ebc9ffefba72f95e9cfeef12af22dbbe",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/mlysy/actions/runs/37189320364"
    },
    {
      "r": "4.6.1",
      "os": "mac",
      "version": "1.1.2",
      "date": "2026-10-04T08:50:16.000Z",
      "commit": "5979bd1b04365132f0424edd65c9da5cf256d15b",
      "fileid": "https://r2.ropensci.org/ffdd161092ef2a2311f5edec29b6c086342beccc58d5174fbb0905b2903c7ce3",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/mlysy/actions/runs/37189320364"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.1.2",
      "date": "2026-10-04T08:37:40.000Z",
      "commit": "5979bd1b04365132f0424edd65c9da5cf256d15b",
      "fileid": "https://r2.ropensci.org/50c473b657416555290a11496a7b8e97cb6f9e48484f1339ef4113d6883ab835",
      "status": "success",
      "buildurl": "https://github.com/r-universe/mlysy/actions/runs/37189320364"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.1.2",
      "date": "2026-10-04T08:37:23.000Z",
      "commit": "5979bd1b04365132f0424edd65c9da5cf256d15b",
      "fileid": "https://r2.ropensci.org/b963c8ebf0fa07ed75251d79a3a39072cc1e7d011ff8830fb140343dd1b0cc2a",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/mlysy/actions/runs/37189320364"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "1.1.2",
      "date": "2026-10-04T08:37:13.000Z",
      "commit": "5979bd1b04365132f0424edd65c9da5cf256d15b",
      "fileid": "https://r2.ropensci.org/b6ca451794bf9bb6460640802684b980cc10f5f41cbb59063d70c47a4077d57c",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/mlysy/actions/runs/37189320364"
    },
    {
      "r": "4.6.1",
      "os": "win",
      "version": "1.1.2",
      "date": "2026-10-04T08:37:12.000Z",
      "commit": "5979bd1b04365132f0424edd65c9da5cf256d15b",
      "fileid": "https://r2.ropensci.org/565aae61738b42f24fea8386297ec81f7ef3deb68a96281496974752de905c2a",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/mlysy/actions/runs/37189320364"
    }
  ]
}