{
  "_id": "6ab616a5c18b73ce90b511ed",
  "Encoding": "UTF-8",
  "Package": "geneExpressionFromGEO",
  "Title": "Easily Downloads a Gene Expression Dataset from a GEO Code and\nRetrieves the Gene Symbols of Its Probesets",
  "Version": "1.3",
  "Authors@R": "person(\"Davide\", \"Chicco\", email = \"davidechicco@davidechicco.it\", comment = c(ORCID = \"0000-0001-9655-7142\"),\nrole = c(\"aut\", \"cre\"))",
  "Description": "A function that reads in the GEO code of a gene expression\ndataset, retrieves its data from GEO, (optionally) retrieves\nthe gene symbols of the dataset, and returns a simple dataframe\ntable containing all the data. Platforms available: GPL11532,\nGPL23126, GPL6244, GPL8300, GPL80, GPL96, GPL570, GPL571,\nGPL20115, GPL1293, GPL6102, GPL6104, GPL6883, GPL6884,\nGPL13497, GPL14550, GPL17077, GPL6480. GEO: Gene Expression\nOmnibus. ID: identifier code. The GEO datasets are downloaded\nfrom the URL <https://ftp.ncbi.nlm.nih.gov/geo/series/>. More\ninformation can be found in the following manuscript: Davide\nChicco, \"geneExpressionFromGEO: an R package to facilitate data\nreading from Gene Expression Omnibus (GEO)\". Microarray Data\nAnalysis, Methods in Molecular Biology, volume 2401, chapter\n12, pages 187-194, Springer Protocols, 2021,\n<doi:10.1007/978-1-0716-1839-4_12>.",
  "BugReports": "https://github.com/davidechicco/geneExpressionFromGEO/issues",
  "License": "GPL-3",
  "URL": "https://github.com/davidechicco/geneExpressionFromGEO",
  "VignetteBuilder": "knitr",
  "RoxygenNote": "7.3.2",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-09-25 06:32:31 UTC",
    "User": "root"
  },
  "Author": "Davide Chicco [aut, cre] (ORCID:\n<https://orcid.org/0000-0001-9655-7142>)",
  "Maintainer": "Davide Chicco <davidechicco@davidechicco.it>",
  "Config/pak/sysreqs": "zlib1g-dev",
  "Repository": "https://cran.r-universe.dev",
  "Date/Publication": "2025-12-09 10:44:51 UTC",
  "RemoteUrl": "https://github.com/cran/geneExpressionFromGEO",
  "RemoteRef": "HEAD",
  "RemoteSha": "3b94e0a56ae737fa26864f4651d7e743a69b1a0e",
  "_user": "cran",
  "_type": "src",
  "_file": "geneExpressionFromGEO_1.3.tar.gz",
  "_fileid": "https://r2.ropensci.org/c965ea70b7a1cdd44bba9f84ea7e5f3d42dee1198aeb848349166241e4fa246f",
  "_filesize": 96688,
  "_sha256": "c965ea70b7a1cdd44bba9f84ea7e5f3d42dee1198aeb848349166241e4fa246f",
  "_expires": "2027-01-03T06:37:23.000Z",
  "_created": "2026-09-25T06:32:31.000Z",
  "_published": "2026-09-25T06:37:25.357Z",
  "_jobs": [
    {
      "job": 107970411581,
      "time": 165,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "10850671203"
    },
    {
      "job": 107970411587,
      "time": 159,
      "config": "linux-release-x86_64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "10850216429"
    },
    {
      "job": 107969535839,
      "time": 224,
      "config": "source",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "10849589368"
    },
    {
      "job": 107970411589,
      "time": 255,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "10849774060"
    },
    {
      "job": 107970411584,
      "time": 80,
      "config": "windows-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "10850206235"
    },
    {
      "job": 107970411608,
      "time": 80,
      "config": "windows-release-x86_64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "10849674136"
    }
  ],
  "_host": "GitHub-Actions",
  "_buildurl": "https://github.com/r-universe/cran/actions/runs/36103028074",
  "_status": "success",
  "_upstream": "https://github.com/cran/geneExpressionFromGEO",
  "_commit": {
    "id": "3b94e0a56ae737fa26864f4651d7e743a69b1a0e",
    "author": "Davide Chicco <davidechicco@davidechicco.it>",
    "committer": "cran-robot <csardi.gabor+cran@gmail.com>",
    "message": "version 1.3\n",
    "time": 1765277091
  },
  "_maintainer": {
    "name": "Davide Chicco",
    "email": "davidechicco@davidechicco.it",
    "orcid": "0000-0001-9655-7142"
  },
  "_distro": "resolute",
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 3.1.0",
      "role": "Depends"
    },
    {
      "package": "xml2",
      "role": "Imports"
    },
    {
      "package": "Biobase",
      "role": "Imports"
    },
    {
      "package": "annotate",
      "role": "Imports"
    },
    {
      "package": "GEOquery",
      "role": "Imports"
    },
    {
      "package": "utils",
      "role": "Imports"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    },
    {
      "package": "rmarkdown",
      "role": "Suggests"
    }
  ],
  "_owner": "cran",
  "_selfowned": false,
  "_usedby": 0,
  "_updates": [
    {
      "week": "2025-50",
      "n": 1
    }
  ],
  "_tags": [
    {
      "name": "1.3",
      "date": "2025-12-09"
    }
  ],
  "_stars": 0,
  "_userbio": {
    "uuid": 6899542,
    "type": "organization",
    "name": "cran",
    "followers": 630,
    "description": "Unofficial read-only mirror of all CRAN R packages"
  },
  "_downloads": {
    "count": 467,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/geneExpressionFromGEO"
  },
  "_devurl": "https://github.com/davidechicco/geneexpressionfromgeo",
  "_searchresults": 10,
  "_rbuild": "4.6.1",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/geneExpressionFromGEO.html",
    "extra/manual.pdf"
  ],
  "_realowner": "cran",
  "_cranurl": false,
  "_releases": [
    {
      "version": "0.2",
      "date": "2020-11-16"
    },
    {
      "version": "0.3",
      "date": "2020-11-17"
    },
    {
      "version": "0.4",
      "date": "2021-01-25"
    },
    {
      "version": "0.5",
      "date": "2021-04-06"
    },
    {
      "version": "0.6",
      "date": "2021-04-24"
    },
    {
      "version": "0.8",
      "date": "2021-11-07"
    },
    {
      "version": "0.9",
      "date": "2021-12-16"
    },
    {
      "version": "1.2",
      "date": "2025-04-11"
    },
    {
      "version": "1.3",
      "date": "2025-12-11"
    }
  ],
  "_exports": [
    "dec_two",
    "getDatasetFeaturesFromGEOcode",
    "getGeneExpressionFromGEO",
    "readUrl"
  ],
  "_help": [
    {
      "page": "dec_two",
      "title": "Function that returns numeric values with 2 decimal numbers.",
      "topics": [
        "dec_two"
      ]
    },
    {
      "page": "getDatasetFeaturesFromGEOcode",
      "title": "Function that reads in the GEO code of a dataset, and returns the complete gene expression dataframe by printing its features (if requested).",
      "topics": [
        "getDatasetFeaturesFromGEOcode"
      ]
    },
    {
      "page": "getGeneExpressionFromGEO",
      "title": "Function that reads in the GEO code of a dataset, and returns the gene expression dataframe.",
      "topics": [
        "getGeneExpressionFromGEO"
      ]
    },
    {
      "page": "readUrl",
      "title": "Function that reads in a URL to check and verifies if it exists (function written by Janko Thyson @rappster and taken from https://stackoverflow.com/a/12195574 )",
      "topics": [
        "readUrl"
      ]
    }
  ],
  "_rundeps": [
    "abind",
    "annotate",
    "AnnotationDbi",
    "askpass",
    "Biobase",
    "BiocBaseUtils",
    "BiocFileCache",
    "BiocGenerics",
    "Biostrings",
    "bit",
    "bit64",
    "blob",
    "cachem",
    "cli",
    "clipr",
    "cpp11",
    "crayon",
    "curl",
    "data.table",
    "DBI",
    "dbplyr",
    "DelayedArray",
    "dplyr",
    "fastmap",
    "filelock",
    "generics",
    "GenomicRanges",
    "GEOquery",
    "glue",
    "hms",
    "httr",
    "httr2",
    "IRanges",
    "jsonlite",
    "KEGGREST",
    "lattice",
    "lifecycle",
    "limma",
    "magrittr",
    "Matrix",
    "MatrixGenerics",
    "matrixStats",
    "memoise",
    "mime",
    "openssl",
    "pillar",
    "pkgconfig",
    "png",
    "prettyunits",
    "progress",
    "purrr",
    "R.methodsS3",
    "R.oo",
    "R.utils",
    "R6",
    "readr",
    "rentrez",
    "rlang",
    "RSQLite",
    "rvest",
    "S4Arrays",
    "S4Vectors",
    "selectr",
    "Seqinfo",
    "SparseArray",
    "statmod",
    "stringi",
    "stringr",
    "SummarizedExperiment",
    "sys",
    "tibble",
    "tidyr",
    "tidyselect",
    "tzdb",
    "utf8",
    "vctrs",
    "vroom",
    "withr",
    "XML",
    "xml2",
    "xtable",
    "XVector"
  ],
  "_vignettes": [
    {
      "source": "geneExpressionFromGEOvignette.Rmd",
      "filename": "geneExpressionFromGEOvignette.html",
      "title": "geneExpressionFromGEOvignette",
      "engine": "knitr::rmarkdown",
      "headings": [],
      "created": "2020-11-16 08:20:06",
      "modified": "2020-11-16 08:20:06",
      "commits": 1
    }
  ],
  "_score": 2,
  "_indexed": true,
  "_nocasepkg": "geneexpressionfromgeo",
  "_universes": [
    "cran",
    "davidechicco"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.3",
      "date": "2026-09-25T06:35:12.000Z",
      "distro": "resolute",
      "commit": "3b94e0a56ae737fa26864f4651d7e743a69b1a0e",
      "fileid": "https://r2.ropensci.org/739b2100a485cf27c963618349d22ef78ff7922022a74f6cee8532c37f053180",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/cran/actions/runs/36103028074"
    },
    {
      "r": "4.6.1",
      "os": "linux",
      "version": "1.3",
      "date": "2026-09-25T06:35:08.000Z",
      "distro": "resolute",
      "commit": "3b94e0a56ae737fa26864f4651d7e743a69b1a0e",
      "fileid": "https://r2.ropensci.org/fda59f9ee3a6ca6436dab03248f1dfc22fb621eaff643c30dd8796f530fc2cdd",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/cran/actions/runs/36103028074"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.3",
      "date": "2026-09-25T06:37:02.000Z",
      "commit": "3b94e0a56ae737fa26864f4651d7e743a69b1a0e",
      "fileid": "https://r2.ropensci.org/95931fe01db5dc66e037a6ced5b37e1502da13689d8dd7a1049b432bb90da704",
      "status": "success",
      "buildurl": "https://github.com/r-universe/cran/actions/runs/36103028074"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.3",
      "date": "2026-09-25T06:33:48.000Z",
      "commit": "3b94e0a56ae737fa26864f4651d7e743a69b1a0e",
      "fileid": "https://r2.ropensci.org/324cb56269edc5e32af743cd63d08e1227bb34c937ac1cf997532076b2b26b87",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/cran/actions/runs/36103028074"
    },
    {
      "r": "4.6.1",
      "os": "win",
      "version": "1.3",
      "date": "2026-09-25T06:33:49.000Z",
      "commit": "3b94e0a56ae737fa26864f4651d7e743a69b1a0e",
      "fileid": "https://r2.ropensci.org/aa6d19edfe6a1a40a286473d9f272a5d361689bd398bdeca80a16bec66b1bd30",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/cran/actions/runs/36103028074"
    }
  ]
}