{
  "_id": "6a2faf243efcd9bda4328b93",
  "Package": "rSWeeP",
  "Type": "Package",
  "Title": "Spaced Words Projection (SWeeP)",
  "Version": "1.24.0",
  "Date": "2024-04-28",
  "Authors@R": "c(\nperson(given = \"Camila Pereira\",\nfamily = \"Perico\",\nrole = c(\"com\", \"cre\", \"aut\", \"cph\"),\nemail = \"camilapp94@gmail.com\",\ncomment = c(ORCID = \"https://orcid.org/0000-0003-0186-4022\")),\nperson(given = \"Danrley Rafael\",\nfamily = \"Fernandes\",\nrole = \"aut\",\nemail = \"DanrleyRF@gmail.com\"),\nperson(given = \"Mariane Gonçalves\",\nfamily = \"Kulik\",\nrole = \"aut\",\ncomment = c(ORCID = \"https://orcid.org/0009-0000-5432-3524\") ),\nperson(given = \"Júlia Formighieri\",\nfamily = \"Varaschin\",\nrole = \"aut\"),\nperson(given = \"Camilla Reginatto\",\nfamily = \"de Pierri\",\nrole = \"aut\",\ncomment = c(ORCID = \"https://orcid.org/0000-0002-6114-1734\") ),\nperson(given = \"Ricardo Assunção\",\nfamily = \"Vialle\",\nrole = \"aut\",\ncomment = c(ORCID = \"https://orcid.org/0000-0003-3311-4197\") ),\nperson(given = \"Roberto Tadeu\",\nfamily = \"Raittz\",\nrole = c(\"aut\", \"cph\"),\nemail = \"raittz@ufpr.br\",\ncomment = c(ORCID = \"https://orcid.org/0000-0002-5271-991X\") )\n)",
  "Maintainer": "Camila P Perico <camilapp94@gmail.com>",
  "Description": "\"Spaced Words Projection (SWeeP)\" is a method for\nrepresenting biological sequences using vectors preserving\ninter-sequence comparability.",
  "Encoding": "UTF-8",
  "RoxygenNote": "7.3.2",
  "VignetteBuilder": "knitr",
  "Config/testthat/edition": "3",
  "License": "GPL (>= 2)",
  "Config/pak/sysreqs": "libicu-dev zlib1g-dev",
  "Repository": "https://bioc-release.r-universe.dev",
  "Date/Publication": "2026-04-28 12:51:39 UTC",
  "RemoteUrl": "https://github.com/bioc/rSWeeP",
  "RemoteRef": "RELEASE_3_23",
  "RemoteSha": "ca26a7302865aedbb8f878b81ed201c722b8bc34",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-06-15 07:44:22 UTC",
    "User": "root"
  },
  "Author": "Camila Pereira Perico [com, cre, aut, cph] (ORCID:\n<https://orcid.org/0000-0003-0186-4022>),\nDanrley Rafael Fernandes [aut],\nMariane Gonçalves Kulik [aut] (ORCID:\n<https://orcid.org/0009-0000-5432-3524>),\nJúlia Formighieri Varaschin [aut],\nCamilla Reginatto de Pierri [aut] (ORCID:\n<https://orcid.org/0000-0002-6114-1734>),\nRicardo Assunção Vialle [aut] (ORCID:\n<https://orcid.org/0000-0003-3311-4197>),\nRoberto Tadeu Raittz [aut, cph] (ORCID:\n<https://orcid.org/0000-0002-5271-991X>)",
  "MD5sum": "4b193ddfdc16bad9a95afdc4b533d61a",
  "_user": "bioc-release",
  "_type": "src",
  "_file": "rSWeeP_1.24.0.tar.gz",
  "_fileid": "0a1c057b432183bf586c87ea6bc960f33430ab30651f486a52aa3f53acc01cd9",
  "_filesize": 353472,
  "_sha256": "0a1c057b432183bf586c87ea6bc960f33430ab30651f486a52aa3f53acc01cd9",
  "_created": "2026-06-15T07:44:22.000Z",
  "_published": "2026-06-15T07:52:04.124Z",
  "_jobs": [
    {
      "job": 81370775484,
      "time": 192,
      "config": "bioc-checks",
      "r": "4.6.0",
      "check": "ERROR",
      "artifact": "7631929676"
    },
    {
      "job": 81370775492,
      "time": 275,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "7631957150"
    },
    {
      "job": 81370775517,
      "time": 409,
      "config": "linux-release-x86_64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7632003179"
    },
    {
      "job": 81370775586,
      "time": 189,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "7631926267"
    },
    {
      "job": 81370775462,
      "time": 187,
      "config": "macos-release-arm64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7631925848"
    },
    {
      "job": 81370168358,
      "time": 233,
      "config": "source",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7631863033"
    },
    {
      "job": 81370775479,
      "time": 154,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7631915172"
    },
    {
      "job": 81370775495,
      "time": 157,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "7631917128"
    },
    {
      "job": 81370775478,
      "time": 156,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "7631917330"
    },
    {
      "job": 81370775537,
      "time": 176,
      "config": "windows-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7631923542"
    }
  ],
  "_bioccheck": {
    "error": 1,
    "warning": 2,
    "note": 14
  },
  "_buildurl": "https://github.com/r-universe/bioc-release/actions/runs/27531392478",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_upstream": "https://github.com/bioc/rSWeeP",
  "_commit": {
    "id": "ca26a7302865aedbb8f878b81ed201c722b8bc34",
    "author": "A Wokaty <andres.wokaty@sph.cuny.edu>",
    "committer": "A Wokaty <andres.wokaty@sph.cuny.edu>",
    "message": "bump x.y.z version to even y prior to creation of RELEASE_3_23 branch\n",
    "time": 1777380699
  },
  "_maintainer": {
    "name": "Camila P Perico",
    "email": "camilapp94@gmail.com",
    "login": "camilapperico",
    "orcid": "0000-0003-0186-4022",
    "description": "Bioinformatician and Biologist, Ph.D. candidate in bioinformatics in Universidade Federal Paraná.",
    "uuid": 57415377
  },
  "_distro": "noble",
  "_registered": true,
  "_dependencies": [
    {
      "package": "foreach",
      "role": "Depends"
    },
    {
      "package": "doParallel",
      "role": "Depends"
    },
    {
      "package": "parallel",
      "role": "Depends"
    },
    {
      "package": "Biostrings",
      "role": "Depends"
    },
    {
      "package": "methods",
      "role": "Depends"
    },
    {
      "package": "utils",
      "role": "Depends"
    },
    {
      "package": "tools",
      "role": "Imports"
    },
    {
      "package": "stringi",
      "role": "Imports"
    },
    {
      "package": "Rtsne",
      "role": "Suggests"
    },
    {
      "package": "ape",
      "role": "Suggests"
    },
    {
      "package": "Seurat",
      "role": "Suggests"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    },
    {
      "package": "rmarkdown",
      "role": "Suggests"
    },
    {
      "package": "tictoc",
      "role": "Suggests"
    },
    {
      "package": "BiocStyle",
      "role": "Suggests"
    },
    {
      "package": "testthat",
      "version": ">= 3.0.0",
      "role": "Suggests"
    }
  ],
  "_owner": "bioc",
  "_selfowned": false,
  "_usedby": 0,
  "_updates": [
    {
      "week": "2025-44",
      "n": 2
    },
    {
      "week": "2026-18",
      "n": 1
    }
  ],
  "_tags": [],
  "_bioc": [
    {
      "branch": "devel",
      "version": "1.25.0",
      "bioc": "3.24"
    },
    {
      "branch": "release",
      "version": "1.24.0",
      "bioc": "3.23"
    }
  ],
  "_userbio": {
    "uuid": 2286807,
    "type": "organization",
    "name": "Bioconductor",
    "followers": 440,
    "description": "Software for the analysis and comprehension of high-throughput genomic data"
  },
  "_downloads": {
    "count": 324,
    "source": "https://www.bioconductor.org/packages/stats/bioc/rSWeeP"
  },
  "_searchresults": 3,
  "_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/readme.html",
    "extra/readme.md",
    "extra/rSWeeP.html",
    "manual.pdf"
  ],
  "_realowner": "bioc",
  "_cranurl": false,
  "_exports": [
    "extractHDV",
    "orthBase",
    "PCCI",
    "PMPG",
    "SWeeP",
    "SWeePlite"
  ],
  "_help": [
    {
      "page": "rSWeeP-package",
      "title": "rSWeeP - Alignment-free method for vectorising biological sequences",
      "topics": [
        "rSWeeP-package",
        "rSWeeP"
      ]
    },
    {
      "page": "extractHDV",
      "title": "Function for obtaining the HDV (High Dimensional Vector) matrix",
      "topics": [
        "extractHDV",
        "extractHDV,AAStringSet-method",
        "extractHDV,BString-method",
        "extractHDV,BStringSet-method",
        "extractHDV,character-method",
        "extractHDV,DNAStringSet-method",
        "extractHDV,RNAStringSet-method"
      ]
    },
    {
      "page": "orthBase",
      "title": "Generate a orthonormal matrix",
      "topics": [
        "orthBase"
      ]
    },
    {
      "page": "PCCI",
      "title": "PhyloTaxonomic Consistency Cophenetic Index",
      "topics": [
        "PCCI"
      ]
    },
    {
      "page": "PMPG",
      "title": "Percentage of Mono or Paraphyletic Groups",
      "topics": [
        "PMPG"
      ]
    },
    {
      "page": "SWeeP",
      "title": "Spaced Words Projection",
      "topics": [
        "SWeeP",
        "SWeeP,AAStringSet-method",
        "SWeeP,array-method",
        "SWeeP,BString-method",
        "SWeeP,BStringSet-method",
        "SWeeP,character-method",
        "SWeeP,dgCMatrix-method",
        "SWeeP,DNAStringSet-method",
        "SWeeP,integer-method",
        "SWeeP,matrix-method",
        "SWeeP,RNAStringSet-method"
      ]
    },
    {
      "page": "SWeePlite",
      "title": "Spaced Words Projection lite",
      "topics": [
        "SWeePlite",
        "SWeePlite,AAStringSet-method",
        "SWeePlite,array-method",
        "SWeePlite,BString-method",
        "SWeePlite,BStringSet-method",
        "SWeePlite,character-method",
        "SWeePlite,dgCMatrix-method",
        "SWeePlite,DNAStringSet-method",
        "SWeePlite,integer-method",
        "SWeePlite,matrix-method",
        "SWeePlite,RNAStringSet-method"
      ]
    }
  ],
  "_readme": "https://github.com/bioc/rSWeeP/raw/RELEASE_3_23/README.md",
  "_rundeps": [
    "BiocGenerics",
    "Biostrings",
    "codetools",
    "crayon",
    "doParallel",
    "foreach",
    "generics",
    "IRanges",
    "iterators",
    "S4Vectors",
    "Seqinfo",
    "stringi",
    "XVector"
  ],
  "_vignettes": [
    {
      "source": "rSWeeP.Rmd",
      "filename": "rSWeeP.html",
      "title": "rSWeeP: Alignment-free method for vectorising biological sequences",
      "author": "Camila Pereira Perico, Danrley Rafael Fernandes, Julia Formighieri Varaschin, Camilla Reginatto De Pierri, Mariane Gonçalves Kulik, Ricardo Assunção Vialle, Roberto Tadeu Raittz",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Overview",
        "Functions",
        "Quick Start",
        "Session information",
        "References"
      ],
      "created": "2019-06-25 17:34:22",
      "modified": "2024-08-17 20:40:22",
      "commits": 15
    }
  ],
  "_score": 4,
  "_indexed": false,
  "_nocasepkg": "rsweep",
  "_universes": [
    "bioc-release"
  ],
  "_indexurl": "https://bioc.r-universe.dev/rSWeeP",
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.24.0",
      "date": "2026-06-15T07:48:18.000Z",
      "distro": "noble",
      "commit": "ca26a7302865aedbb8f878b81ed201c722b8bc34",
      "fileid": "be3a3be5c6cd6170c5b8e3e1b6758dee45c15f06ef49dc05a1748db9f7e214a1",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/27531392478"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "1.24.0",
      "date": "2026-06-15T07:50:31.000Z",
      "distro": "noble",
      "commit": "ca26a7302865aedbb8f878b81ed201c722b8bc34",
      "fileid": "787f7c5eb9c6e158bb1a97db222c4f8c208bd85b7a3a696a807d7d3473dbc198",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/27531392478"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.24.0",
      "date": "2026-06-15T07:46:38.000Z",
      "commit": "ca26a7302865aedbb8f878b81ed201c722b8bc34",
      "fileid": "68a2d29251ca1d1b07f6a96190e4801bf2da8ed505960fd4587bccdea238ca28",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/27531392478"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "1.24.0",
      "date": "2026-06-15T07:46:41.000Z",
      "commit": "ca26a7302865aedbb8f878b81ed201c722b8bc34",
      "fileid": "fa92491135d93d336dcc0b4975bd09dcb30ef97e6e89dc50efee1e51c34ee8f8",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/27531392478"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.24.0",
      "date": "2026-06-15T07:47:14.000Z",
      "commit": "ca26a7302865aedbb8f878b81ed201c722b8bc34",
      "fileid": "33630e4033e50f6bcab6376b3dae4e15af5fa5153e10618c2a1845824e6b6d97",
      "status": "success",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/27531392478"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.24.0",
      "date": "2026-06-15T07:46:11.000Z",
      "commit": "ca26a7302865aedbb8f878b81ed201c722b8bc34",
      "fileid": "6ee5145ef386d5ffb3a0c286afefaea1e104c064125402bb6d408d7cf3ae8738",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/27531392478"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "1.24.0",
      "date": "2026-06-15T07:46:06.000Z",
      "commit": "ca26a7302865aedbb8f878b81ed201c722b8bc34",
      "fileid": "04e521bbffc7ecc48406b5f742d4aebf024b0088236ecd17e9906967ffea4173",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/27531392478"
    },
    {
      "r": "4.6.0",
      "os": "win",
      "version": "1.24.0",
      "date": "2026-06-15T07:46:23.000Z",
      "commit": "ca26a7302865aedbb8f878b81ed201c722b8bc34",
      "fileid": "7b6c2452566a6c02b6825edd51906bcecf7ccb9c42c9259f9b5dda99fc7b5fee",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/27531392478"
    }
  ]
}