{
  "_id": "6ac62fc9f511ae58c09a759b",
  "Package": "PHYLOGR",
  "Version": "1.0.12",
  "Date": "2026-01-30",
  "Title": "Functions for Phylogenetically Based Statistical Analyses",
  "Authors@R": "c(person(given = \"Ramon\",\nfamily = \"Diaz-Uriarte\",\nrole = c(\"aut\", \"cre\"),\nemail = \"rdiaz02@gmail.com\"),\nperson(given = \"Theodore\",\nfamily = \"Garland, Jr\",\nrole = \"aut\",\nemail = \"theodore.garland@ucr.edu\"))",
  "Maintainer": "Ramon Diaz-Uriarte <rdiaz02@gmail.com>",
  "Description": "Manipulation and analysis of phylogenetically simulated\ndata sets and phylogenetically based analyses using GLS.",
  "License": "GPL (>= 2)",
  "URL": "http://ligarto.org/rdiaz",
  "LazyData": "true",
  "Repository": "https://phylotastic.r-universe.dev",
  "Date/Publication": "2026-01-31 09:44:26 UTC",
  "RemoteUrl": "https://github.com/rdiaz02/PHYLOGR",
  "RemoteRef": "HEAD",
  "RemoteSha": "0dfef60cc47d67381b3016f7545a92be381fdef5",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-10-07 09:30:12 UTC",
    "User": "root"
  },
  "Author": "Ramon Diaz-Uriarte [aut, cre],\nTheodore Garland, Jr [aut]",
  "_user": "phylotastic",
  "_type": "src",
  "_file": "PHYLOGR_1.0.12.tar.gz",
  "_fileid": "https://r2.ropensci.org/bf6614a4eaf4118c75fd5b3fc08b87330ee91f4c27656a0e99bc6ba34ea3ce9d",
  "_filesize": 943571,
  "_sha256": "bf6614a4eaf4118c75fd5b3fc08b87330ee91f4c27656a0e99bc6ba34ea3ce9d",
  "_expires": "2027-01-15T11:40:56.000Z",
  "_created": "2026-10-07T09:30:12.000Z",
  "_published": "2026-10-07T11:40:57.823Z",
  "_buildurl": "https://github.com/r-universe/phylotastic/actions/runs/37599117697",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_jobs": [
    {
      "job": 112725369656,
      "time": 132,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "11472693609"
    },
    {
      "job": 112725369713,
      "time": 95,
      "config": "linux-release-x86_64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11473585941"
    },
    {
      "job": 112725369740,
      "time": 86,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "11478529395"
    },
    {
      "job": 112725369749,
      "time": 101,
      "config": "macos-release-arm64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11479189444"
    },
    {
      "job": 112721655143,
      "time": 122,
      "config": "source",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11472557606"
    },
    {
      "job": 112725369663,
      "time": 81,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "11472842957"
    },
    {
      "job": 112725369909,
      "time": 62,
      "config": "windows-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "11472991133"
    },
    {
      "job": 112725369920,
      "time": 61,
      "config": "windows-oldrel-x86_64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "11472871974"
    },
    {
      "job": 112725369797,
      "time": 55,
      "config": "windows-release-x86_64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11473100938"
    }
  ],
  "_upstream": "https://github.com/rdiaz02/PHYLOGR",
  "_commit": {
    "id": "0dfef60cc47d67381b3016f7545a92be381fdef5",
    "author": "Ramon @ Triturus <no_specific_email>",
    "committer": "Ramon @ Triturus <no_specific_email>",
    "message": "v. 1.0.12: solved NOTES\n",
    "time": 1769852666
  },
  "_maintainer": {
    "name": "Ramon Diaz-Uriarte",
    "email": "rdiaz02@gmail.com",
    "login": "rdiaz02",
    "description": "",
    "uuid": 1688611
  },
  "_distro": "resolute",
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 1.8.1",
      "role": "Depends"
    }
  ],
  "_owner": "rdiaz02",
  "_selfowned": false,
  "_usedby": 0,
  "_updates": [
    {
      "week": "2026-05",
      "n": 1
    }
  ],
  "_tags": [],
  "_stars": 0,
  "_contributors": [
    {
      "user": "rdiaz02",
      "count": 9,
      "uuid": 1688611
    }
  ],
  "_userbio": {
    "uuid": 1652822,
    "type": "organization",
    "name": "phylotastic",
    "followers": 5
  },
  "_downloads": {
    "count": 344,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/PHYLOGR"
  },
  "_mentions": 4,
  "_devurl": "https://github.com/rdiaz02/phylogr",
  "_searchresults": 26,
  "_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/PHYLOGR.html"
  ],
  "_homeurl": "https://github.com/rdiaz02/phylogr",
  "_realowner": "rdiaz02",
  "_cranurl": true,
  "_releases": [
    {
      "version": "0.1",
      "date": "2000-08-31"
    },
    {
      "version": "0.9",
      "date": "2000-11-01"
    },
    {
      "version": "0.91",
      "date": "2000-11-13"
    },
    {
      "version": "1.0",
      "date": "2001-05-02"
    },
    {
      "version": "1.0.1",
      "date": "2001-12-24"
    },
    {
      "version": "1.0.2",
      "date": "2003-07-28"
    },
    {
      "version": "1.0.3",
      "date": "2004-03-30"
    },
    {
      "version": "1.0.4",
      "date": "2005-04-01"
    },
    {
      "version": "1.0.5",
      "date": "2007-09-25"
    },
    {
      "version": "1.0.6",
      "date": "2007-10-09"
    },
    {
      "version": "1.0.7",
      "date": "2012-10-29"
    },
    {
      "version": "1.0.8",
      "date": "2014-11-09"
    },
    {
      "version": "1.0.10",
      "date": "2018-03-20"
    },
    {
      "version": "1.0.11",
      "date": "2020-04-14"
    },
    {
      "version": "1.0.12",
      "date": "2026-01-30"
    }
  ],
  "_exports": [
    "cancor.phylog",
    "cor.origin",
    "lm.phylog",
    "matrix.D",
    "phylog.gls.fit",
    "prcomp.phylog",
    "read.inp.data",
    "read.pdi.data",
    "read.phylip.data",
    "read.phylog.matrix",
    "read.sim.data"
  ],
  "_datasets": [
    {
      "name": "GarlandJanis.IC",
      "title": "Independet contrasts for Garland & Janis data set",
      "object": "GarlandJanis.IC",
      "class": [
        "data.frame"
      ],
      "fields": [
        "body.mass",
        "running.speed",
        "hind.l.length",
        "mtf.ratio",
        "branch.lengths",
        "names.contr",
        "clade.contr"
      ],
      "rows": 48,
      "table": true,
      "tojson": true
    },
    {
      "name": "GarlandJanis.Original",
      "title": "Garland & Janis's 1993 data on mammalian running speed and limb length",
      "object": "GarlandJanis.Original",
      "class": [
        "data.frame"
      ],
      "fields": [
        "Tips",
        "body.mass",
        "running.speed",
        "hind.l.length",
        "mtf.ratio",
        "clade"
      ],
      "rows": 49,
      "table": true,
      "tojson": true
    },
    {
      "name": "GarlandJanis.varcov",
      "title": "Phylogenetic variance-covariance matrix for Garland & Janis (1993).",
      "object": "GarlandJanis.varcov",
      "class": [
        "data.frame"
      ],
      "fields": [
        "Tm",
        "Ur",
        "Um",
        "Nn",
        "pl",
        "Mp",
        "Ml",
        "Cp",
        "Ct",
        "Lp",
        "Ca",
        "Uc",
        "Vf",
        "Hh",
        "Cc",
        "Aj",
        "Pp",
        "Pt",
        "Pl",
        "Tb",
        "Cs",
        "Db",
        "Eh",
        "Ec",
        "Eb",
        "Lg",
        "Cd",
        "Gc",
        "Sc",
        "Bb",
        "To",
        "Gg",
        "Gt",
        "Ac",
        "Mk",
        "Oa",
        "Oc",
        "He",
        "Am",
        "Cu",
        "Dl",
        "Ab",
        "Aa",
        "cc",
        "Dd",
        "Al",
        "Rt",
        "Ov",
        "Oh"
      ],
      "rows": 49,
      "table": true,
      "tojson": true
    },
    {
      "name": "Lacertid.IC",
      "title": "Independet contrasts for Bauwens and Diaz-Uriarte (1997) lacertid data set",
      "object": "Lacertid.IC",
      "class": [
        "data.frame"
      ],
      "fields": [
        "svl",
        "svl.matur",
        "hatsvl",
        "hatweight",
        "clutch.size",
        "age.mat",
        "cl.freq",
        "contr"
      ],
      "rows": 17,
      "table": true,
      "tojson": true
    },
    {
      "name": "Lacertid.Original",
      "title": "Bauwens and Diaz-Uriarte (1997) lacertid data",
      "object": "Lacertid.Original",
      "class": [
        "data.frame"
      ],
      "fields": [
        "Tips",
        "svl",
        "svl.matur",
        "hatsvl",
        "hatweight",
        "clutch.size",
        "age.mat",
        "cl.freq"
      ],
      "rows": 18,
      "table": true,
      "tojson": true
    },
    {
      "name": "Lacertid.varcov",
      "title": "Variance-covariance matrix for lacertids from Bauwens and Diaz-uriarte (1997)",
      "object": "Lacertid.varcov",
      "class": [
        "data.frame"
      ],
      "fields": [
        "Sa",
        "Sh",
        "Tl",
        "Mc",
        "My",
        "Pb",
        "Ph",
        "Pg",
        "Pa",
        "Pm",
        "Tt",
        "Ts",
        "Ae",
        "Zv",
        "Zo",
        "La",
        "Ls",
        "Lv"
      ],
      "rows": 18,
      "table": true,
      "tojson": true
    },
    {
      "name": "SimulExample",
      "title": "A simulated data set",
      "object": "SimulExample",
      "class": [
        "data.frame"
      ],
      "fields": [
        "sim.counter",
        "Tips",
        "y",
        "x1",
        "x2",
        "x3",
        "x4",
        "x5",
        "x6",
        "x7",
        "diet"
      ],
      "rows": 918,
      "table": true,
      "tojson": true
    }
  ],
  "_help": [
    {
      "page": "cancor.phylog",
      "title": "Canonical Correlation Analysis from Simulated Data Sets",
      "topics": [
        "cancor.phylog"
      ]
    },
    {
      "page": "cor.origin",
      "title": "Correlation Through the Origin",
      "topics": [
        "cor.origin"
      ]
    },
    {
      "page": "GarlandJanis.IC",
      "title": "Independet contrasts for Garland & Janis data set",
      "topics": [
        "GarlandJanis.IC"
      ]
    },
    {
      "page": "GarlandJanis.Original",
      "title": "Garland & Janis's 1993 data on mammalian running speed and limb length",
      "topics": [
        "GarlandJanis.Original"
      ]
    },
    {
      "page": "GarlandJanis.varcov",
      "title": "Phylogenetic variance-covariance matrix for Garland & Janis (1993).",
      "topics": [
        "GarlandJanis.varcov"
      ]
    },
    {
      "page": "Helper.functions",
      "title": "Helper functions",
      "topics": [
        "num.sim.tips",
        "number.of.simulations",
        "number.of.tips.inp",
        "number.of.tips.pdi",
        "number.of.tips.sim",
        "scan.inp.file",
        "scan.pdi.file",
        "scan.simulation.file",
        "tips.names.inp",
        "tips.names.pdi"
      ]
    },
    {
      "page": "Lacertid.IC",
      "title": "Independet contrasts for Bauwens and Diaz-Uriarte (1997) lacertid data set",
      "topics": [
        "Lacertid.IC"
      ]
    },
    {
      "page": "Lacertid.Original",
      "title": "Bauwens and Diaz-Uriarte (1997) lacertid data",
      "topics": [
        "Lacertid.Original"
      ]
    },
    {
      "page": "Lacertid.varcov",
      "title": "Variance-covariance matrix for lacertids from Bauwens and Diaz-uriarte (1997)",
      "topics": [
        "Lacertid.varcov"
      ]
    },
    {
      "page": "lm.phylog",
      "title": "Linear Models from Simulated Data Sets",
      "topics": [
        "lm.phylog"
      ]
    },
    {
      "page": "matrix.D",
      "title": "Produce the Matrix D of Garland and Ives (2000) for GLS",
      "topics": [
        "matrix.D"
      ]
    },
    {
      "page": "phylog.gls.fit",
      "title": "Phylogenetically-Based GLS Model Fitting",
      "topics": [
        "phylog.gls.fit"
      ]
    },
    {
      "page": "plot.phylog.cancor",
      "title": "Plot a phylog.cancor object",
      "topics": [
        "plot.phylog.cancor"
      ]
    },
    {
      "page": "plot.phylog.lm",
      "title": "Plot a phylog.lm object",
      "topics": [
        "plot.phylog.lm"
      ]
    },
    {
      "page": "plot.phylog.prcomp",
      "title": "Plot a phylog.prcomp object",
      "topics": [
        "plot.phylog.prcomp"
      ]
    },
    {
      "page": "prcomp.phylog",
      "title": "Principal Components Analysis from Simulated Data Sets",
      "topics": [
        "prcomp.phylog"
      ]
    },
    {
      "page": "print.summary.phylog",
      "title": "Printing summaries of PHYLOGR statistical functions",
      "topics": [
        "print.summary.phylog.cancor",
        "print.summary.phylog.lm",
        "print.summary.phylog.prcomp"
      ]
    },
    {
      "page": "read.inp.data",
      "title": "Read Inp Data Files",
      "topics": [
        "read.inp.data"
      ]
    },
    {
      "page": "read.pdi.data",
      "title": "Read Pdi Data Files",
      "topics": [
        "read.pdi.data"
      ]
    },
    {
      "page": "read.phylip.data",
      "title": "Read Phylip Infile Data Files",
      "topics": [
        "read.phylip.data"
      ]
    },
    {
      "page": "read.phylog.matrix",
      "title": "Read a Phylogenetic Covariance Matrix",
      "topics": [
        "read.phylog.matrix"
      ]
    },
    {
      "page": "read.sim.data",
      "title": "Read Sim Files From PDSIMUL",
      "topics": [
        "read.sim.data"
      ]
    },
    {
      "page": "SimulExample",
      "title": "A simulated data set",
      "topics": [
        "SimulExample"
      ]
    },
    {
      "page": "summary.phylog.cancor",
      "title": "Summarize a phylog.cancor object",
      "topics": [
        "summary.phylog.cancor"
      ]
    },
    {
      "page": "summary.phylog.lm",
      "title": "Summarize a phylog.lm object",
      "topics": [
        "summary.phylog.lm"
      ]
    },
    {
      "page": "summary.phylog.prcomp",
      "title": "Summarize a phylog.prcomp object",
      "topics": [
        "summary.phylog.prcomp"
      ]
    }
  ],
  "_rundeps": [],
  "_score": 3.0170333392987807,
  "_indexed": false,
  "_nocasepkg": "phylogr",
  "_universes": [
    "phylotastic"
  ],
  "_indexurl": "https://rdiaz02.r-universe.dev/PHYLOGR",
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.0.12",
      "date": "2026-10-07T09:36:58.000Z",
      "distro": "resolute",
      "commit": "0dfef60cc47d67381b3016f7545a92be381fdef5",
      "fileid": "https://r2.ropensci.org/118bfce73437d35967a6208b43d5528e7f06b94da514aab8376c1a6281251df2",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/phylotastic/actions/runs/37599117697"
    },
    {
      "r": "4.6.1",
      "os": "linux",
      "version": "1.0.12",
      "date": "2026-10-07T09:36:33.000Z",
      "distro": "resolute",
      "commit": "0dfef60cc47d67381b3016f7545a92be381fdef5",
      "fileid": "https://r2.ropensci.org/9b8aed7732423f05045eee0568e27191c167dd3130cc234910b1182fb46973d5",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/phylotastic/actions/runs/37599117697"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.0.12",
      "date": "2026-10-07T11:40:16.000Z",
      "commit": "0dfef60cc47d67381b3016f7545a92be381fdef5",
      "fileid": "https://r2.ropensci.org/4e409a41796e29c543c763e10045dd2290ea2a7b468dc24cb1b787c8c340bc63",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/phylotastic/actions/runs/37599117697"
    },
    {
      "r": "4.6.1",
      "os": "mac",
      "version": "1.0.12",
      "date": "2026-10-07T11:38:37.000Z",
      "commit": "0dfef60cc47d67381b3016f7545a92be381fdef5",
      "fileid": "https://r2.ropensci.org/400f274dbf8ee3ac64efc5d7de6574b76b692a72cc64f6087a7ac16f0d3d5352",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/phylotastic/actions/runs/37599117697"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.0.12",
      "date": "2026-10-07T09:36:24.000Z",
      "commit": "0dfef60cc47d67381b3016f7545a92be381fdef5",
      "fileid": "https://r2.ropensci.org/f7fb545dd33f3c434812c1a5403efe4adc2b4057ce1a3fbae6f1bd6e313a3e9b",
      "status": "success",
      "buildurl": "https://github.com/r-universe/phylotastic/actions/runs/37599117697"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.0.12",
      "date": "2026-10-07T09:31:24.000Z",
      "commit": "0dfef60cc47d67381b3016f7545a92be381fdef5",
      "fileid": "https://r2.ropensci.org/3ce393b5827fe63d4705cddc65dc7f80d422bdb9d5a6c82aa2d41cc17f1671fd",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/phylotastic/actions/runs/37599117697"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "1.0.12",
      "date": "2026-10-07T09:31:30.000Z",
      "commit": "0dfef60cc47d67381b3016f7545a92be381fdef5",
      "fileid": "https://r2.ropensci.org/b5301ec88a294d56c13438cf4538f3dba49a991f0f330b7633a402d7f231a18c",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/phylotastic/actions/runs/37599117697"
    },
    {
      "r": "4.6.1",
      "os": "win",
      "version": "1.0.12",
      "date": "2026-10-07T09:31:24.000Z",
      "commit": "0dfef60cc47d67381b3016f7545a92be381fdef5",
      "fileid": "https://r2.ropensci.org/cedf83365d657332082da5850b1994f576998ad7ca544a5b679d83ed7e626710",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/phylotastic/actions/runs/37599117697"
    }
  ]
}