{
  "_id": "6a1024d9acfb0bcc41c8e724",
  "Package": "MiRaGE",
  "Version": "1.55.0",
  "Title": "MiRNA Ranking by Gene Expression",
  "Author": "Y-h. Taguchi <tag@granular.com>",
  "Maintainer": "Y-h. Taguchi <tag@granular.com>",
  "Description": "The package contains functions for inferece of target gene\nregulation by miRNA, based on only target gene expression\nprofile.",
  "License": "GPL",
  "Collate": "MiRaGE_r.R HS_conv_id.R MM_conv_id.R id_conv_gen.R\nTBL2_HS_gen.R TBL2_MM_gen.R MiRaGEAnalysis.R MiRaGEMean.R\nMiRaGEMixed.R MiRaGEOneByOne.R getMiRaGEData.R",
  "LazyLoad": "yes",
  "Date": "2013-1207",
  "Packaged": {
    "Date": "2026-05-13 09:54:53 UTC",
    "User": "root"
  },
  "biocViews": "ImmunoOncology, Microarray, GeneExpression, RNASeq,\nSequencing, SAGE",
  "Config/pak/sysreqs": "libpng-dev libssl-dev zlib1g-dev",
  "Repository": "https://bioc.r-universe.dev",
  "Date/Publication": "2026-04-28 12:36:32 UTC",
  "RemoteUrl": "https://github.com/bioc/MiRaGE",
  "RemoteRef": "HEAD",
  "RemoteSha": "a05c99e594465e2a776500825a9cefa2b28cd50a",
  "NeedsCompilation": "no",
  "MD5sum": "1e8d7ab4d8f97d24d0dc9c7b62f4f6cd",
  "_user": "bioc",
  "_type": "src",
  "_file": "MiRaGE_1.55.0.tar.gz",
  "_fileid": "c5c91747ed913124c763245b57f163a4019757d3997453e0d7c12938d32455c1",
  "_filesize": 1326548,
  "_sha256": "c5c91747ed913124c763245b57f163a4019757d3997453e0d7c12938d32455c1",
  "_created": "2026-05-13T09:54:53.000Z",
  "_published": "2026-05-22T09:41:45.269Z",
  "_jobs": [
    {
      "job": 77354261907,
      "time": 353,
      "config": "bioc-checks",
      "r": "4.6.0",
      "check": "ERROR",
      "artifact": "6967087053"
    },
    {
      "job": 77354261776,
      "time": 391,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "WARNING",
      "artifact": "6967100716"
    },
    {
      "job": 77354261885,
      "time": 373,
      "config": "linux-release-x86_64",
      "r": "4.6.0",
      "check": "WARNING",
      "artifact": "6967096576"
    },
    {
      "job": 77354261720,
      "time": 234,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "WARNING",
      "artifact": "6967349246"
    },
    {
      "job": 77354261782,
      "time": 325,
      "config": "macos-release-arm64",
      "r": "4.6.0",
      "check": "WARNING",
      "artifact": "6967378530"
    },
    {
      "job": 77354262084,
      "time": 435,
      "config": "source",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "6966957308"
    },
    {
      "job": 77354261355,
      "time": 308,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7157504679"
    },
    {
      "job": 77354261705,
      "time": 496,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "WARNING",
      "artifact": "6967137208"
    },
    {
      "job": 77354261876,
      "time": 383,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "WARNING",
      "artifact": "6967098138"
    },
    {
      "job": 77354262146,
      "time": 380,
      "config": "windows-release",
      "r": "4.6.0",
      "check": "WARNING",
      "artifact": "6967097150"
    }
  ],
  "_bioccheck": {
    "error": 4,
    "warning": 4,
    "note": 17
  },
  "_buildurl": "https://github.com/r-universe/bioc/actions/runs/25791442601",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_upstream": "https://github.com/bioc/MiRaGE",
  "_commit": {
    "id": "a05c99e594465e2a776500825a9cefa2b28cd50a",
    "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": 1777379792
  },
  "_maintainer": {
    "name": "Y-h. Taguchi",
    "email": "tag@granular.com",
    "login": "tagtag",
    "uuid": 11694497
  },
  "_distro": "noble",
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 3.1.0",
      "role": "Depends"
    },
    {
      "package": "Biobase",
      "version": ">= 2.23.3",
      "role": "Depends"
    },
    {
      "package": "BiocGenerics",
      "role": "Imports"
    },
    {
      "package": "S4Vectors",
      "role": "Imports"
    },
    {
      "package": "AnnotationDbi",
      "role": "Imports"
    },
    {
      "package": "BiocManager",
      "role": "Imports"
    },
    {
      "package": "seqinr",
      "version": ">= 3.0.7",
      "role": "Suggests"
    },
    {
      "package": "biomaRt",
      "version": ">= 2.19.1",
      "role": "Suggests"
    },
    {
      "package": "GenomicFeatures",
      "version": ">= 1.15.4",
      "role": "Suggests"
    },
    {
      "package": "Biostrings",
      "version": ">= 2.31.3",
      "role": "Suggests"
    },
    {
      "package": "BSgenome.Hsapiens.UCSC.hg19",
      "role": "Suggests"
    },
    {
      "package": "BSgenome.Mmusculus.UCSC.mm10",
      "role": "Suggests"
    },
    {
      "package": "miRNATarget",
      "role": "Suggests"
    },
    {
      "package": "humanStemCell",
      "role": "Suggests"
    },
    {
      "package": "IRanges",
      "role": "Suggests"
    },
    {
      "package": "GenomicRanges",
      "version": ">= 1.8.3",
      "role": "Suggests"
    },
    {
      "package": "BSgenome",
      "role": "Suggests"
    },
    {
      "package": "beadarrayExampleData",
      "role": "Suggests"
    }
  ],
  "_owner": "bioc",
  "_selfowned": true,
  "_usedby": 0,
  "_updates": [
    {
      "week": "2025-44",
      "n": 2
    },
    {
      "week": "2026-18",
      "n": 2
    }
  ],
  "_tags": [],
  "_bioc": [
    {
      "branch": "devel",
      "version": "1.55.0",
      "bioc": "3.24"
    },
    {
      "branch": "release",
      "version": "1.54.0",
      "bioc": "3.23"
    }
  ],
  "_topics": [
    "immunooncology",
    "microarray",
    "geneexpression",
    "rnaseq",
    "sequencing",
    "sage"
  ],
  "_userbio": {
    "uuid": 2286807,
    "type": "organization",
    "name": "Bioconductor",
    "description": "Software for the analysis and comprehension of high-throughput genomic data"
  },
  "_downloads": {
    "count": 512,
    "source": "https://www.bioconductor.org/packages/stats/bioc/MiRaGE"
  },
  "_mentions": 1,
  "_searchresults": 40,
  "_rbuild": "4.6.0",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/MiRaGE.html",
    "manual.pdf"
  ],
  "_realowner": "bioc",
  "_cranurl": false,
  "_exports": [
    "getMiRaGEData",
    "HS_conv_id",
    "id_conv_gen",
    "MiRaGE",
    "MM_conv_id",
    "TBL2_HS_gen",
    "TBL2_MM_gen"
  ],
  "_datasets": [
    {
      "name": "gene_exp",
      "title": "This ExpressionSet represents gene expression of lung cancer cell line one day after let-7a transfection.",
      "object": "gene_exp",
      "file": "gene_exp.rda",
      "class": [
        "ExpressionSet"
      ],
      "fields": [],
      "table": false,
      "tojson": false
    }
  ],
  "_help": [
    {
      "page": "gene_exp",
      "title": "This ExpressionSet represents gene expression of lung cancer cell line one day after let-7a transfection.",
      "topics": [
        "gene_exp"
      ]
    },
    {
      "page": "getMiRaGEData",
      "title": "Data retrieval function for MiRaGE",
      "topics": [
        "getMiRaGEData"
      ]
    },
    {
      "page": "HS_conv_id",
      "title": "miRNA conservation table generation function",
      "topics": [
        "HS_conv_id"
      ]
    },
    {
      "page": "id_conv_gen",
      "title": "Conversion table between refseq id vs various gene id/probe id generation function",
      "topics": [
        "id_conv_gen"
      ]
    },
    {
      "page": "MiRaGE",
      "title": "Inference of Target Gene Regulation via MicroRNA",
      "topics": [
        "MiRaGE"
      ]
    },
    {
      "page": "MM_conv_id",
      "title": "miRNA conservation table generation function",
      "topics": [
        "MM_conv_id"
      ]
    },
    {
      "page": "TBL2_HS_gen",
      "title": "The target genes table for human miRNAs",
      "topics": [
        "TBL2_HS_gen"
      ]
    },
    {
      "page": "TBL2_MM_gen",
      "title": "The target genes table for mouse miRNAs",
      "topics": [
        "TBL2_MM_gen"
      ]
    }
  ],
  "_rundeps": [
    "AnnotationDbi",
    "askpass",
    "Biobase",
    "BiocGenerics",
    "BiocManager",
    "Biostrings",
    "bit",
    "bit64",
    "blob",
    "cachem",
    "cli",
    "cpp11",
    "crayon",
    "curl",
    "DBI",
    "fastmap",
    "generics",
    "glue",
    "httr",
    "IRanges",
    "jsonlite",
    "KEGGREST",
    "lifecycle",
    "memoise",
    "mime",
    "openssl",
    "pkgconfig",
    "png",
    "R6",
    "rlang",
    "RSQLite",
    "S4Vectors",
    "Seqinfo",
    "sys",
    "vctrs",
    "XVector"
  ],
  "_vignettes": [
    {
      "source": "MiRaGE.Rnw",
      "filename": "MiRaGE.pdf",
      "title": "How to use MiRaGE Package",
      "engine": "utils::Sweave",
      "headings": [],
      "created": "2013-11-01 20:25:48",
      "modified": "2013-12-10 03:51:34",
      "commits": 3
    }
  ],
  "_score": 3.9030899869919438,
  "_indexed": true,
  "_nocasepkg": "mirage",
  "_universes": [
    "bioc",
    "tagtag"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.55.0",
      "date": "2026-05-13T10:00:41.000Z",
      "distro": "noble",
      "commit": "a05c99e594465e2a776500825a9cefa2b28cd50a",
      "fileid": "abe7d117cb8905d65628c8c0002d26bc15930ab398c0b033ed0941f755a689ed",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/25791442601"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "1.55.0",
      "date": "2026-05-13T10:00:35.000Z",
      "distro": "noble",
      "commit": "a05c99e594465e2a776500825a9cefa2b28cd50a",
      "fileid": "5ccf486313684cb1149543ef725f40a6f87c4077871aff7d75b43c90cae98319",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/25791442601"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.55.0",
      "date": "2026-05-13T10:13:01.000Z",
      "commit": "a05c99e594465e2a776500825a9cefa2b28cd50a",
      "fileid": "edc95ba8fba2d860d6be6ea0786450ffb43001fc5fb7f85e3078f46f77fa7bd8",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/25791442601"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "1.55.0",
      "date": "2026-05-13T10:13:49.000Z",
      "commit": "a05c99e594465e2a776500825a9cefa2b28cd50a",
      "fileid": "7ec11678ddd3ba539922f39e61ccbd3f30e4a0d3d2707f8f0a4c08671f1ca702",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/25791442601"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.55.0",
      "date": "2026-05-13T10:02:30.000Z",
      "commit": "a05c99e594465e2a776500825a9cefa2b28cd50a",
      "fileid": "8ffe7b2436813ad81b2b1a27fc558c73fb1c1212fd87335987aea024ac441383",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/25791442601"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "1.55.0",
      "date": "2026-05-13T10:00:27.000Z",
      "commit": "a05c99e594465e2a776500825a9cefa2b28cd50a",
      "fileid": "6cf72f9c766f05289b421ebc1a1306a07a18643c0b5eb2f4995e7a1b03ac7609",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/25791442601"
    },
    {
      "r": "4.6.0",
      "os": "win",
      "version": "1.55.0",
      "date": "2026-05-13T10:00:29.000Z",
      "commit": "a05c99e594465e2a776500825a9cefa2b28cd50a",
      "fileid": "ce3b7b042d2e8cb403392efc6844a371446cf662987e18bfccddd9e8836de4ff",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/25791442601"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.55.0",
      "date": "2026-05-22T09:41:21.000Z",
      "commit": "a05c99e594465e2a776500825a9cefa2b28cd50a",
      "fileid": "9076dadd2012de569a5642bcdf8ae37fdd88f5e298fc188b6b2a473486aad796",
      "status": "success",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/25791442601"
    }
  ]
}