{
  "_id": "6a5734ecff0138dec5d6f20a",
  "Package": "paco",
  "Version": "0.5.0",
  "Date": "2026-07-13",
  "Title": "Procrustes Application to Cophylogenetic Analysis",
  "Description": "Procrustes analyses to infer co-phylogenetic matching\nbetween pairs of phylogenetic trees.",
  "Authors@R": "c(\nperson(\ngiven = \"Juan Antonio\",\nfamily = \"Balbuena\",\nemail = \"j.a.balbuena@uv.es\",\nrole = c(\"aut\", \"cre\")\n),\nperson(\ngiven = \"Timothée\",\nfamily = \"Poisot\",\nemail = \"timothee.poisot@umontreal.ca\",\nrole = \"aut\"\n),\nperson(\ngiven = \"Matthew\",\nfamily = \"Hutchinson\",\nemail = \"mhutchinson6@ucmerced.edu\",\nrole = \"aut\"\n),\nperson(\ngiven = \"Fernando\",\nfamily = \"Cagua\",\nemail = \"fernando@cagua.co\",\nrole = \"aut\"\n)\n)",
  "Note": "The previous version (0.4.2) fixed a numerical issue with\nsymmetric implementation of the paco_links function.",
  "License": "MIT + file LICENSE",
  "URL": "https://www.uv.es/cophylpaco/",
  "Encoding": "UTF-8",
  "Config/roxygen2/version": "8.0.0",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-07-15 07:18:37 UTC",
    "User": "root"
  },
  "Author": "Juan Antonio Balbuena [aut, cre], Timothée Poisot [aut],\nMatthew Hutchinson [aut], Fernando Cagua [aut]",
  "Maintainer": "Juan Antonio Balbuena <j.a.balbuena@uv.es>",
  "Repository": "https://ligophorus.r-universe.dev",
  "Date/Publication": "2026-07-14 23:30:02 UTC",
  "RemoteUrl": "https://github.com/cran/paco",
  "RemoteRef": "HEAD",
  "RemoteSha": "eec36fef8bd4b3813cd98a3c22267fe9257dff4d",
  "_user": "ligophorus",
  "_type": "src",
  "_file": "paco_0.5.0.tar.gz",
  "_fileid": "https://r2.ropensci.org/3f35a93630be1ad43545a516b0a4d3bfcf9319572b8c0fc76d870f780545918d",
  "_filesize": 117467,
  "_sha256": "3f35a93630be1ad43545a516b0a4d3bfcf9319572b8c0fc76d870f780545918d",
  "_expires": "2026-10-23T07:21:15.000Z",
  "_created": "2026-07-15T07:18:37.000Z",
  "_published": "2026-07-15T07:21:16.957Z",
  "_jobs": [
    {
      "job": 87292458106,
      "time": 123,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "8335521171"
    },
    {
      "job": 87292458117,
      "time": 117,
      "config": "linux-release-x86_64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "8335519045"
    },
    {
      "job": 87292458135,
      "time": 123,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "8335515537"
    },
    {
      "job": 87292458118,
      "time": 123,
      "config": "macos-release-arm64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "8335514324"
    },
    {
      "job": 87292032415,
      "time": 147,
      "config": "source",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "8335477785"
    },
    {
      "job": 87292458137,
      "time": 97,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "8335512026"
    },
    {
      "job": 87292458153,
      "time": 78,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "8335505327"
    },
    {
      "job": 87292458127,
      "time": 69,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "8335502472"
    },
    {
      "job": 87292458163,
      "time": 70,
      "config": "windows-release",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "8335502864"
    }
  ],
  "_host": "GitHub-Actions",
  "_buildurl": "https://github.com/r-universe/ligophorus/actions/runs/29396785203",
  "_status": "success",
  "_upstream": "https://github.com/cran/paco",
  "_commit": {
    "id": "eec36fef8bd4b3813cd98a3c22267fe9257dff4d",
    "author": "Juan Antonio Balbuena <j.a.balbuena@uv.es>",
    "committer": "cran-robot <csardi.gabor+cran@gmail.com>",
    "message": "version 0.5.0\n",
    "time": 1784071802
  },
  "_maintainer": {
    "name": "Juan Antonio Balbuena",
    "email": "j.a.balbuena@uv.es",
    "login": "ligophorus",
    "bluesky": "@jabalbuena.bsky.social",
    "description": "Zoologist. Marine parasites, community ecology,  symbiosis, cophylogeny & coevolution. ",
    "uuid": 22170335
  },
  "_distro": "resolute",
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 3.0.0",
      "role": "Depends"
    },
    {
      "package": "vegan",
      "version": ">= 2.2-0",
      "role": "Imports"
    },
    {
      "package": "plyr",
      "role": "Imports"
    },
    {
      "package": "ape",
      "role": "Suggests"
    },
    {
      "package": "testthat",
      "role": "Suggests"
    }
  ],
  "_owner": "cran",
  "_selfowned": true,
  "_usedby": 0,
  "_updates": [
    {
      "week": "2026-29",
      "n": 1
    }
  ],
  "_tags": [
    {
      "name": "0.5.0",
      "date": "2026-07-14"
    }
  ],
  "_stars": 1,
  "_contributors": [
    {
      "user": "matthutchinson1",
      "count": 6,
      "uuid": 9644651
    },
    {
      "user": "ligophorus",
      "count": 1,
      "uuid": 22170335
    }
  ],
  "_userbio": {
    "uuid": 22170335,
    "type": "user",
    "name": "Juan Antonio Balbuena",
    "followers": 11,
    "description": "Zoologist. Marine parasites, community ecology,  symbiosis, cophylogeny & coevolution. "
  },
  "_downloads": {
    "count": 62,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/paco"
  },
  "_mentions": 2,
  "_searchresults": 49,
  "_rbuild": "4.6.1",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/NEWS.html",
    "extra/NEWS.txt",
    "extra/paco.html",
    "extra/readme.html",
    "extra/readme.md",
    "LICENSE",
    "manual.pdf"
  ],
  "_realowner": "ligophorus",
  "_cranurl": false,
  "_releases": [
    {
      "version": "0.2.1",
      "date": "2015-07-18"
    },
    {
      "version": "0.2.2",
      "date": "2015-10-09"
    },
    {
      "version": "0.2.3",
      "date": "2015-11-10"
    },
    {
      "version": "0.3.0",
      "date": "2016-10-07"
    },
    {
      "version": "0.3.1",
      "date": "2016-12-05"
    },
    {
      "version": "0.3.2",
      "date": "2017-07-16"
    },
    {
      "version": "0.4.0",
      "date": "2019-05-12"
    },
    {
      "version": "0.4.1",
      "date": "2019-05-20"
    },
    {
      "version": "0.4.2",
      "date": "2020-08-25"
    },
    {
      "version": "0.5.0",
      "date": "2026-07-15"
    }
  ],
  "_exports": [
    "add_pcoord",
    "PACo",
    "paco_links",
    "prepare_paco_data",
    "residuals_paco"
  ],
  "_datasets": [
    {
      "name": "gl_links",
      "title": "Gopher-lice interactions",
      "object": "gopherlice",
      "file": "gopherlice.rda",
      "class": [
        "matrix",
        "array"
      ],
      "fields": [
        "Gset",
        "Gpan",
        "Gche",
        "Gcos",
        "Gcha",
        "Ggeo",
        "Gokl",
        "Gewi",
        "Gtex",
        "Gexp",
        "Gact",
        "Gpero",
        "Gtho",
        "Gtri",
        "Gnad",
        "Tmin",
        "Tbar"
      ],
      "rows": 15,
      "table": true,
      "tojson": true
    },
    {
      "name": "gophertree",
      "title": "Gopher phylogeny",
      "object": "gopherlice",
      "file": "gopherlice.rda",
      "class": [
        "phylo"
      ],
      "fields": [],
      "table": false,
      "tojson": false
    },
    {
      "name": "licetree",
      "title": "Lice phylogeny",
      "object": "gopherlice",
      "file": "gopherlice.rda",
      "class": [
        "phylo"
      ],
      "fields": [],
      "table": false,
      "tojson": false
    }
  ],
  "_help": [
    {
      "page": "add_pcoord",
      "title": "Principal Coordinates analysis of phylogenetic distance matrices",
      "topics": [
        "add_pcoord"
      ]
    },
    {
      "page": "gl_links",
      "title": "Gopher-lice interactions",
      "topics": [
        "gl_links"
      ]
    },
    {
      "page": "gophertree",
      "title": "Gopher phylogeny",
      "topics": [
        "gophertree"
      ]
    },
    {
      "page": "licetree",
      "title": "Lice phylogeny",
      "topics": [
        "licetree"
      ]
    },
    {
      "page": "PACo",
      "title": "Performs PACo analysis.",
      "topics": [
        "PACo"
      ]
    },
    {
      "page": "paco_links",
      "title": "Contribution of individual links",
      "topics": [
        "paco_links"
      ]
    },
    {
      "page": "prepare_paco_data",
      "title": "Prepares the data (distance matrices and association matrix) for PACo analysis",
      "topics": [
        "prepare_paco_data"
      ]
    },
    {
      "page": "residuals_paco",
      "title": "Return Procrustes residuals from a paco object",
      "topics": [
        "residuals_paco"
      ]
    }
  ],
  "_readme": "https://github.com/cran/paco/raw/HEAD/README.md",
  "_rundeps": [
    "cluster",
    "lattice",
    "MASS",
    "Matrix",
    "mgcv",
    "nlme",
    "permute",
    "plyr",
    "Rcpp",
    "vegan"
  ],
  "_score": 2.690196080028514,
  "_indexed": true,
  "_nocasepkg": "paco",
  "_universes": [
    "ligophorus"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "0.5.0",
      "date": "2026-07-15T07:20:38.000Z",
      "distro": "resolute",
      "commit": "eec36fef8bd4b3813cd98a3c22267fe9257dff4d",
      "fileid": "https://r2.ropensci.org/c08d06097463890c69ec1bfc0939b78baa9670a18638cea107bf59f8a97b2ed3",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/ligophorus/actions/runs/29396785203"
    },
    {
      "r": "4.6.1",
      "os": "linux",
      "version": "0.5.0",
      "date": "2026-07-15T07:20:33.000Z",
      "distro": "resolute",
      "commit": "eec36fef8bd4b3813cd98a3c22267fe9257dff4d",
      "fileid": "https://r2.ropensci.org/e5f39ab261e9f24a0c73b9b89c6a6ec788888c3ff33b8403ceafed58b3f7945f",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/ligophorus/actions/runs/29396785203"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "0.5.0",
      "date": "2026-07-15T07:20:28.000Z",
      "commit": "eec36fef8bd4b3813cd98a3c22267fe9257dff4d",
      "fileid": "https://r2.ropensci.org/a0a4acf9358ef28a8798e4b84e13eb1747f46a14de45cdedcc280828f3be6890",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/ligophorus/actions/runs/29396785203"
    },
    {
      "r": "4.6.1",
      "os": "mac",
      "version": "0.5.0",
      "date": "2026-07-15T07:20:25.000Z",
      "commit": "eec36fef8bd4b3813cd98a3c22267fe9257dff4d",
      "fileid": "https://r2.ropensci.org/d432400d4d298c9ce0cbd353d1e557488ab758d6c73fa53f9bf6cdb3d28880ce",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/ligophorus/actions/runs/29396785203"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "0.5.0",
      "date": "2026-07-15T07:20:27.000Z",
      "commit": "eec36fef8bd4b3813cd98a3c22267fe9257dff4d",
      "fileid": "https://r2.ropensci.org/43e6c3fd4b62c8e2d74f94a19e5f8e778385b831e0a2a559ed2c573f0091c10e",
      "status": "success",
      "buildurl": "https://github.com/r-universe/ligophorus/actions/runs/29396785203"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "0.5.0",
      "date": "2026-07-15T07:19:52.000Z",
      "commit": "eec36fef8bd4b3813cd98a3c22267fe9257dff4d",
      "fileid": "https://r2.ropensci.org/b9d2af6093095bfb98b92f9286e2a17d44952016dea6a00cdfbdfb4c46386fe4",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/ligophorus/actions/runs/29396785203"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "0.5.0",
      "date": "2026-07-15T07:19:43.000Z",
      "commit": "eec36fef8bd4b3813cd98a3c22267fe9257dff4d",
      "fileid": "https://r2.ropensci.org/fcebfdbf8002d0919d45f4251431cca9390efda2ad15a0723da23ed2d86fff0f",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/ligophorus/actions/runs/29396785203"
    },
    {
      "r": "4.6.1",
      "os": "win",
      "version": "0.5.0",
      "date": "2026-07-15T07:19:44.000Z",
      "commit": "eec36fef8bd4b3813cd98a3c22267fe9257dff4d",
      "fileid": "https://r2.ropensci.org/a432b99c7f4967239659cf79b8ad383edca9bbd87381a5a13a7bab205d2932fd",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/ligophorus/actions/runs/29396785203"
    }
  ]
}