{
  "_id": "6a1abd9b1d7bb097a09d6229",
  "Package": "planet",
  "Title": "Placental DNA methylation analysis tools",
  "Version": "1.21.0",
  "Authors@R": "c(person(\"Victor\", \"Yuan\", email = \"victor.2wy@gmail.com\",\nrole = c(\"aut\", \"cre\")),\nperson(c(\"Wendy\", \"P.\"), \"Robinson\",\nrole = c(\"aut\", \"ctb\")),\nperson(\"Icíar\", \"Fernández-Boyano\", email = \"iciarfernandez@outlook.com\",\nrole = c(\"aut\", \"ctb\")))",
  "URL": "http://github.com/wvictor14/planet, http://victoryuan.com/planet/",
  "BugReports": "http://github.com/wvictor14/planet/issues",
  "Description": "This package contains R functions to predict biological\nvariables to from placnetal DNA methylation data generated from\ninfinium arrays. This includes inferring ethnicity/ancestry,\ngestational age, and cell composition from placental DNA\nmethylation array (450k/850k) data.",
  "License": "GPL-2",
  "Encoding": "UTF-8",
  "LazyData": "false",
  "RoxygenNote": "7.3.2",
  "VignetteBuilder": "knitr",
  "biocViews": "Software, DifferentialMethylation, Epigenetics, Microarray,\nMethylationArray, DNAMethylation, CpGIsland",
  "Roxygen": "list(markdown = TRUE)",
  "Repository": "https://bioc.r-universe.dev",
  "Date/Publication": "2026-04-28 12:54:49 UTC",
  "RemoteUrl": "https://github.com/bioc/planet",
  "RemoteRef": "HEAD",
  "RemoteSha": "8086bc5eb5aa4aac016da42046ffff75f7c598d4",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-05-30 07:12:31 UTC",
    "User": "root"
  },
  "Author": "Victor Yuan [aut, cre],\nWendy P. Robinson [aut, ctb],\nIcíar Fernández-Boyano [aut, ctb]",
  "Maintainer": "Victor Yuan <victor.2wy@gmail.com>",
  "MD5sum": "5a7fbdff68b7730fd12fbdf627fa4377",
  "_user": "bioc",
  "_type": "src",
  "_file": "planet_1.21.0.tar.gz",
  "_fileid": "d980db615ea79ac7c61a97bbf04563127f93a1f4d724b9e0b18e54a65187df61",
  "_filesize": 3308231,
  "_sha256": "d980db615ea79ac7c61a97bbf04563127f93a1f4d724b9e0b18e54a65187df61",
  "_created": "2026-05-30T07:12:31.000Z",
  "_published": "2026-05-30T10:36:11.794Z",
  "_jobs": [
    {
      "job": 78632676914,
      "time": 180,
      "config": "bioc-checks",
      "r": "4.6.0",
      "check": "WARNING",
      "artifact": "7306383061"
    },
    {
      "job": 78632676907,
      "time": 260,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "NOTE",
      "artifact": "7306392402"
    },
    {
      "job": 78632676911,
      "time": 256,
      "config": "linux-release-x86_64",
      "r": "4.6.0",
      "check": "NOTE",
      "artifact": "7306391955"
    },
    {
      "job": 78632676919,
      "time": 172,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "NOTE",
      "artifact": "7307332289"
    },
    {
      "job": 78632676916,
      "time": 164,
      "config": "macos-release-arm64",
      "r": "4.6.0",
      "check": "NOTE",
      "artifact": "7307332373"
    },
    {
      "job": 78632417160,
      "time": 282,
      "config": "source",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7306361160"
    },
    {
      "job": 78632676908,
      "time": 163,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7306380866"
    },
    {
      "job": 78632676941,
      "time": 176,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "NOTE",
      "artifact": "7306382716"
    },
    {
      "job": 78632676939,
      "time": 162,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "NOTE",
      "artifact": "7306380845"
    },
    {
      "job": 78632676942,
      "time": 161,
      "config": "windows-release",
      "r": "4.6.0",
      "check": "NOTE",
      "artifact": "7306380862"
    }
  ],
  "_bioccheck": {
    "error": 0,
    "warning": 1,
    "note": 13
  },
  "_buildurl": "https://github.com/r-universe/bioc/actions/runs/26677667418",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_upstream": "https://github.com/bioc/planet",
  "_commit": {
    "id": "8086bc5eb5aa4aac016da42046ffff75f7c598d4",
    "author": "A Wokaty <andres.wokaty@sph.cuny.edu>",
    "committer": "A Wokaty <andres.wokaty@sph.cuny.edu>",
    "message": "bump x.y.z version to odd y following creation of RELEASE_3_23 branch\n",
    "time": 1777380889
  },
  "_maintainer": {
    "name": "Victor Yuan",
    "email": "victor.2wy@gmail.com",
    "login": "wvictor14",
    "description": "Data Scientist, PhD \n\nBioinformatics, biotech, pharma, drug development\n",
    "uuid": 22013187
  },
  "_distro": "noble",
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 4.3",
      "role": "Depends"
    },
    {
      "package": "methods",
      "role": "Imports"
    },
    {
      "package": "tibble",
      "role": "Imports"
    },
    {
      "package": "magrittr",
      "role": "Imports"
    },
    {
      "package": "dplyr",
      "role": "Imports"
    },
    {
      "package": "ExperimentHub",
      "role": "Suggests"
    },
    {
      "package": "mixOmics",
      "role": "Suggests"
    },
    {
      "package": "ggplot2",
      "role": "Suggests"
    },
    {
      "package": "testthat",
      "role": "Suggests"
    },
    {
      "package": "tidyr",
      "role": "Suggests"
    },
    {
      "package": "scales",
      "role": "Suggests"
    },
    {
      "package": "minfi",
      "role": "Suggests"
    },
    {
      "package": "EpiDISH",
      "role": "Suggests"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    },
    {
      "package": "rmarkdown",
      "role": "Suggests"
    }
  ],
  "_owner": "bioc",
  "_selfowned": true,
  "_usedby": 1,
  "_updates": [
    {
      "week": "2025-44",
      "n": 2
    },
    {
      "week": "2026-18",
      "n": 2
    }
  ],
  "_tags": [],
  "_bioc": [
    {
      "branch": "devel",
      "version": "1.21.0",
      "bioc": "3.24"
    },
    {
      "branch": "release",
      "version": "1.20.0",
      "bioc": "3.23"
    }
  ],
  "_topics": [
    "software",
    "differentialmethylation",
    "epigenetics",
    "microarray",
    "methylationarray",
    "dnamethylation",
    "cpgisland",
    "ancestry",
    "dna-methylation-data",
    "genetics",
    "inference",
    "machine-learning",
    "placenta"
  ],
  "_stars": 4,
  "_contributors": [
    {
      "user": "wvictor14",
      "count": 280,
      "uuid": 22013187
    },
    {
      "user": "jwokaty",
      "count": 10,
      "uuid": 1744257
    },
    {
      "user": "nturaga",
      "count": 6,
      "uuid": 2746443
    },
    {
      "user": "iciarfernandez",
      "count": 5,
      "uuid": 55170602
    }
  ],
  "_userbio": {
    "uuid": 2286807,
    "type": "organization",
    "name": "Bioconductor",
    "description": "Software for the analysis and comprehension of high-throughput genomic data"
  },
  "_downloads": {
    "count": 534,
    "source": "https://www.bioconductor.org/packages/stats/bioc/planet"
  },
  "_mentions": 1,
  "_devurl": "https://github.com/wvictor14/planet",
  "_pkgdown": "http://victoryuan.com/planet/",
  "_searchresults": 38,
  "_rbuild": "4.6.0",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/NEWS.html",
    "extra/NEWS.txt",
    "extra/planet.html",
    "extra/readme.html",
    "extra/readme.md",
    "manual.pdf"
  ],
  "_homeurl": "https://github.com/wvictor14/planet",
  "_realowner": "bioc",
  "_cranurl": false,
  "_exports": [
    "%>%",
    "predictAge",
    "predictEthnicity",
    "predictPreeclampsia"
  ],
  "_datasets": [
    {
      "name": "ageCpGs",
      "title": "Placental gestational age CpGs",
      "object": "ageCpGs",
      "file": "ageCpGs.rda",
      "class": [
        "spec_tbl_df",
        "tbl_df",
        "tbl",
        "data.frame"
      ],
      "fields": [
        "CpGs",
        "RPC",
        "CPC",
        "RRPC",
        "Sex"
      ],
      "rows": 1126,
      "table": true,
      "tojson": true
    },
    {
      "name": "ethnicityCpGs",
      "title": "CpGs to predict ethnicity",
      "object": "ethnicityCpGs",
      "file": "ethnicityCpGs.rda",
      "class": [
        "character"
      ],
      "fields": [],
      "table": false,
      "tojson": true
    },
    {
      "name": "plBetas",
      "title": "Example placental DNA methylation data",
      "object": "plBetas",
      "file": "plBetas.rda",
      "class": [
        "matrix",
        "array"
      ],
      "fields": [
        "GSM1944936",
        "GSM1944939",
        "GSM1944942",
        "GSM1944944",
        "GSM1944946",
        "GSM1944948",
        "GSM1944949",
        "GSM1944950",
        "GSM1944951",
        "GSM1944952",
        "GSM1944953",
        "GSM1944954",
        "GSM1944955",
        "GSM1944956",
        "GSM1944957",
        "GSM1944958",
        "GSM1944959",
        "GSM1944960",
        "GSM1944961",
        "GSM1944962",
        "GSM1944963",
        "GSM1944964",
        "GSM1944965",
        "GSM1944966"
      ],
      "rows": 13918,
      "table": true,
      "tojson": true
    },
    {
      "name": "plCellCpGsFirst",
      "title": "First trimester placental cell type coefficients",
      "object": "plCellCpGsFirst",
      "file": "plCellCpGsFirst.rda",
      "class": [
        "matrix",
        "array"
      ],
      "fields": [
        "Trophoblasts",
        "Stromal",
        "Hofbauer",
        "Endothelial",
        "nRBC",
        "Syncytiotrophoblast"
      ],
      "rows": 600,
      "table": true,
      "tojson": true
    },
    {
      "name": "plCellCpGsThird",
      "title": "Third trimester placental cell type coefficients",
      "object": "plCellCpGsThird",
      "file": "plCellCpGsThird.rda",
      "class": [
        "matrix",
        "array"
      ],
      "fields": [
        "Trophoblasts",
        "Stromal",
        "Hofbauer",
        "Endothelial",
        "nRBC",
        "Syncytiotrophoblast"
      ],
      "rows": 600,
      "table": true,
      "tojson": true
    },
    {
      "name": "plColors",
      "title": "A color palette for placental cell types",
      "object": "plColors",
      "file": "plColors.rda",
      "class": [
        "character"
      ],
      "fields": [],
      "table": false,
      "tojson": true
    },
    {
      "name": "plPhenoData",
      "title": "Sample information accompanying 'pl_betas'",
      "object": "plPhenoData",
      "file": "plPhenoData.rda",
      "class": [
        "tbl_df",
        "tbl",
        "data.frame"
      ],
      "fields": [
        "sample_id",
        "sex",
        "disease",
        "gestation_wk",
        "ga_RPC",
        "ga_CPC",
        "ga_RRPC"
      ],
      "rows": 24,
      "table": true,
      "tojson": true
    }
  ],
  "_help": [
    {
      "page": "ageCpGs",
      "title": "Placental gestational age CpGs",
      "topics": [
        "ageCpGs"
      ]
    },
    {
      "page": "ethnicityCpGs",
      "title": "CpGs to predict ethnicity",
      "topics": [
        "ethnicityCpGs"
      ]
    },
    {
      "page": "plBetas",
      "title": "Example placental DNA methylation data",
      "topics": [
        "plBetas"
      ]
    },
    {
      "page": "plCellCpGsFirst",
      "title": "First trimester placental cell type coefficients",
      "topics": [
        "plCellCpGsFirst"
      ]
    },
    {
      "page": "plCellCpGsThird",
      "title": "Third trimester placental cell type coefficients",
      "topics": [
        "plCellCpGsThird"
      ]
    },
    {
      "page": "plColors",
      "title": "A color palette for placental cell types",
      "topics": [
        "plColors"
      ]
    },
    {
      "page": "plPhenoData",
      "title": "Sample information accompanying 'pl_betas'",
      "topics": [
        "plPhenoData"
      ]
    },
    {
      "page": "predict",
      "title": "predict mixxo from",
      "topics": [
        "predict",
        "predict.mixo_pls",
        "predict.mixo_spls"
      ]
    },
    {
      "page": "predictAge",
      "title": "Predicts gestational age using placental DNA methylation microarray data",
      "topics": [
        "predictAge"
      ]
    },
    {
      "page": "predictEthnicity",
      "title": "Predicts ethnicity using placental DNA methylation microarray data",
      "topics": [
        "predictEthnicity"
      ]
    },
    {
      "page": "predictPreeclampsia",
      "title": "predictPreeclampsia",
      "topics": [
        "predictPreeclampsia"
      ]
    }
  ],
  "_pkglogo": "https://github.com/bioc/planet/raw/HEAD/man/figures/logo.png",
  "_readme": "https://github.com/bioc/planet/raw/HEAD/README.md",
  "_rundeps": [
    "cli",
    "dplyr",
    "generics",
    "glue",
    "lifecycle",
    "magrittr",
    "pillar",
    "pkgconfig",
    "R6",
    "rlang",
    "tibble",
    "tidyselect",
    "utf8",
    "vctrs",
    "withr"
  ],
  "_vignettes": [
    {
      "source": "planet.Rmd",
      "filename": "planet.html",
      "title": "planet",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Installation",
        "Cell composition",
        "Minfi",
        "EpiDISH",
        "Compare",
        "Gestational age",
        "Example Data",
        "Predict Gestational Age",
        "Ethnicity",
        "Early-onset preeclampsia (EOPE)",
        "References",
        "Session Info"
      ],
      "created": "2021-03-10 19:34:57",
      "modified": "2025-02-01 21:10:33",
      "commits": 5
    }
  ],
  "_score": 6.136086097384098,
  "_indexed": true,
  "_nocasepkg": "planet",
  "_universes": [
    "bioc",
    "wvictor14"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.21.0",
      "date": "2026-05-30T07:16:21.000Z",
      "distro": "noble",
      "commit": "8086bc5eb5aa4aac016da42046ffff75f7c598d4",
      "fileid": "1c195552499295e78465cfe8582915664e82f2e3383dc72196061a0f3dcd835b",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26677667418"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "1.21.0",
      "date": "2026-05-30T07:16:07.000Z",
      "distro": "noble",
      "commit": "8086bc5eb5aa4aac016da42046ffff75f7c598d4",
      "fileid": "654d80d352c37fd10f033650d8fc81912074beca36ebd810890dd0e76e1e54af",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26677667418"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.21.0",
      "date": "2026-05-30T09:53:41.000Z",
      "commit": "8086bc5eb5aa4aac016da42046ffff75f7c598d4",
      "fileid": "d3bef9660551a6da6e4315d5c68a5fb668a8a2575b5599344abf3fc72e446704",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26677667418"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "1.21.0",
      "date": "2026-05-30T09:53:32.000Z",
      "commit": "8086bc5eb5aa4aac016da42046ffff75f7c598d4",
      "fileid": "3059f379f8bf9c27bb9529857998f24a130e93e39a9d0d639852abb3d9c5c702",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26677667418"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.21.0",
      "date": "2026-05-30T07:15:34.000Z",
      "commit": "8086bc5eb5aa4aac016da42046ffff75f7c598d4",
      "fileid": "93494303df92e42e7dc3728fc1d71262ed162b669d08338b19a44199eea2271a",
      "status": "success",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26677667418"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.21.0",
      "date": "2026-05-30T07:14:49.000Z",
      "commit": "8086bc5eb5aa4aac016da42046ffff75f7c598d4",
      "fileid": "52f564cac2e9032024f8bc6c431265c6b8d5af702b4364a2c99cd0f56df38a64",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26677667418"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "1.21.0",
      "date": "2026-05-30T07:14:23.000Z",
      "commit": "8086bc5eb5aa4aac016da42046ffff75f7c598d4",
      "fileid": "8f815b55a38a0ee8dcb55ab63ee6105aafe325203aa0fa0313f1c9e2cda76b00",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26677667418"
    },
    {
      "r": "4.6.0",
      "os": "win",
      "version": "1.21.0",
      "date": "2026-05-30T07:14:38.000Z",
      "commit": "8086bc5eb5aa4aac016da42046ffff75f7c598d4",
      "fileid": "3122c525730ee2d12aee4528148fedb7aabcef5c557cfcd5ea3de00657fefa7b",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26677667418"
    }
  ]
}