{
  "_id": "6a103bb4acfb0bcc41c9ba12",
  "Package": "FracFixR",
  "Type": "Package",
  "Title": "Compositional Statistical Framework for RNA Fractionation\nAnalysis",
  "Version": "1.1.0",
  "Date": "2026-05-11",
  "Authors@R": "c(\nperson(\"Alice\", \"Cleynen\", email = \"alice.cleynen@cnrs.fr\",\nrole = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0001-8083-0204\")),\nperson(\"Agin\", \"Ravindran\", role = \"aut\"),\nperson(\"Nikolay\", \"Shirokikh\", email = \"nikolay.shirokikh@uwa.edu.au\",\nrole = \"aut\", comment = c(ORCID = \"0000-0001-8249-358X\")))",
  "Description": "A compositional statistical framework for absolute\nproportion estimation between fractions in RNA sequencing data.\n'FracFixR' addresses the fundamental challenge in fractionated\nRNA-seq experiments where library preparation and sequencing\ndepth obscure the original proportions of RNA fractions. It\nreconstructs original fraction proportions using non-negative\nlinear regression, estimates the \"lost\" unrecoverable fraction,\ncorrects individual transcript frequencies, and performs\ndifferential proportion testing between conditions. Supports\nany RNA fractionation protocol including polysome profiling,\nsub-cellular localization, and RNA-protein complex isolation.",
  "License": "CC BY 4.0",
  "Encoding": "UTF-8",
  "LazyData": "true",
  "RoxygenNote": "7.3.2",
  "VignetteBuilder": "knitr",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-05-11 10:40:55 UTC",
    "User": "root"
  },
  "Author": "Alice Cleynen [aut, cre] (ORCID:\n<https://orcid.org/0000-0001-8083-0204>), Agin Ravindran [aut],\nNikolay Shirokikh [aut] (ORCID:\n<https://orcid.org/0000-0001-8249-358X>)",
  "Maintainer": "Alice Cleynen <alice.cleynen@cnrs.fr>",
  "Repository": "https://cran.r-universe.dev",
  "Date/Publication": "2026-05-11 08:39:24 UTC",
  "RemoteUrl": "https://github.com/cran/FracFixR",
  "RemoteRef": "HEAD",
  "RemoteSha": "d77c96c6362c3c75d0a9c0d67580f42ac21e14c7",
  "MD5sum": "ccef694a37cf83534ad1bd2965490b69",
  "_user": "cran",
  "_type": "src",
  "_file": "FracFixR_1.1.0.tar.gz",
  "_fileid": "d5250d153d41636d7ac40abe15523adf155cbd0502d6e552469e59780356cac2",
  "_filesize": 333449,
  "_sha256": "d5250d153d41636d7ac40abe15523adf155cbd0502d6e552469e59780356cac2",
  "_created": "2026-05-11T10:40:55.000Z",
  "_published": "2026-05-22T11:19:16.950Z",
  "_distro": "noble",
  "_jobs": [
    {
      "job": 77369123694,
      "time": 146,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "6916372888"
    },
    {
      "job": 77369123606,
      "time": 143,
      "config": "linux-release-x86_64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "6916371983"
    },
    {
      "job": 77369123021,
      "time": 185,
      "config": "source",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "6916323692"
    },
    {
      "job": 77369122986,
      "time": 117,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7159235726"
    }
  ],
  "_buildurl": "https://github.com/r-universe/cran/actions/runs/25665093874",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_upstream": "https://github.com/cran/FracFixR",
  "_commit": {
    "id": "d77c96c6362c3c75d0a9c0d67580f42ac21e14c7",
    "author": "Alice Cleynen <alice.cleynen@cnrs.fr>",
    "committer": "cran-robot <csardi.gabor+cran@gmail.com>",
    "message": "version 1.1.0\n",
    "time": 1778488764
  },
  "_maintainer": {
    "name": "Alice Cleynen",
    "email": "alice.cleynen@cnrs.fr",
    "orcid": "0000-0001-8083-0204"
  },
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 4.0.0",
      "role": "Depends"
    },
    {
      "package": "future.apply",
      "version": ">= 1.8.1",
      "role": "Imports"
    },
    {
      "package": "nnls",
      "version": ">= 1.4",
      "role": "Imports"
    },
    {
      "package": "ggplot2",
      "version": ">= 3.3.5",
      "role": "Imports"
    },
    {
      "package": "dplyr",
      "version": ">= 1.0.7",
      "role": "Imports"
    },
    {
      "package": "RColorBrewer",
      "version": ">= 1.1-2",
      "role": "Imports"
    },
    {
      "package": "tidyr",
      "version": ">= 1.1.3",
      "role": "Imports"
    },
    {
      "package": "matrixStats",
      "version": ">= 0.60.0",
      "role": "Imports"
    },
    {
      "package": "aod",
      "version": ">= 1.3.1",
      "role": "Imports"
    },
    {
      "package": "parallelly",
      "version": ">= 1.30.0",
      "role": "Imports"
    },
    {
      "package": "stats",
      "role": "Imports"
    },
    {
      "package": "utils",
      "role": "Imports"
    },
    {
      "package": "future",
      "role": "Imports"
    },
    {
      "package": "grDevices",
      "role": "Imports"
    },
    {
      "package": "testthat",
      "version": ">= 3.0.0",
      "role": "Suggests"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    },
    {
      "package": "rmarkdown",
      "role": "Suggests"
    }
  ],
  "_owner": "cran",
  "_selfowned": false,
  "_usedby": 0,
  "_updates": [
    {
      "week": "2025-43",
      "n": 1
    },
    {
      "week": "2026-20",
      "n": 1
    }
  ],
  "_tags": [
    {
      "name": "1.0.0",
      "date": "2025-10-21"
    },
    {
      "name": "1.1.0",
      "date": "2026-05-11"
    }
  ],
  "_stars": 0,
  "_userbio": {
    "uuid": 6899542,
    "type": "organization",
    "name": "cran",
    "description": "Unofficial read-only mirror of all CRAN R packages"
  },
  "_downloads": {
    "count": 178,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/FracFixR"
  },
  "_searchresults": 6,
  "_rbuild": "4.6.0",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/FracFixR.html",
    "extra/NEWS.html",
    "extra/NEWS.txt",
    "manual.pdf"
  ],
  "_realowner": "cran",
  "_cranurl": false,
  "_releases": [
    {
      "version": "1.0.0",
      "date": "2025-10-21"
    },
    {
      "version": "1.1.0",
      "date": "2026-05-11"
    }
  ],
  "_exports": [
    "DiffPropTest",
    "FracFixR",
    "get_corrected_counts",
    "PlotComparison",
    "PlotFractions"
  ],
  "_datasets": [
    {
      "name": "example_annotation",
      "title": "Example annotation data frame",
      "object": "example_annotation",
      "class": [
        "data.frame"
      ],
      "fields": [
        "Sample",
        "Condition",
        "Type",
        "Replicate"
      ],
      "rows": 12,
      "table": true,
      "tojson": true
    },
    {
      "name": "example_counts",
      "title": "Example RNA-seq count matrix",
      "object": "example_counts",
      "class": [
        "matrix",
        "array"
      ],
      "fields": [
        "Sample1",
        "Sample2",
        "Sample3",
        "Sample4",
        "Sample5",
        "Sample6",
        "Sample7",
        "Sample8",
        "Sample9",
        "Sample10",
        "Sample11",
        "Sample12"
      ],
      "rows": 100,
      "table": true,
      "tojson": true
    },
    {
      "name": "polysome_annotation",
      "title": "Polysome profiling annotation example",
      "object": "polysome_annotation",
      "class": [
        "data.frame"
      ],
      "fields": [
        "Sample",
        "Condition",
        "Type",
        "Replicate"
      ],
      "rows": 12,
      "table": true,
      "tojson": true
    },
    {
      "name": "subcellular_annotation",
      "title": "Subcellular fractionation annotation example",
      "object": "subcellular_annotation",
      "class": [
        "data.frame"
      ],
      "fields": [
        "Sample",
        "Condition",
        "Type",
        "Replicate"
      ],
      "rows": 12,
      "table": true,
      "tojson": true
    }
  ],
  "_help": [
    {
      "page": "DiffPropTest",
      "title": "DiffPropTest: Statistical Testing for Differential Proportions",
      "topics": [
        "DiffPropTest"
      ]
    },
    {
      "page": "example_annotation",
      "title": "Example annotation data frame",
      "topics": [
        "example_annotation"
      ]
    },
    {
      "page": "example_counts",
      "title": "Example RNA-seq count matrix",
      "topics": [
        "example_counts"
      ]
    },
    {
      "page": "FracFixR",
      "title": "FracFixR: Main Function for Fraction Correction",
      "topics": [
        "FracFixR"
      ]
    },
    {
      "page": "get_corrected_counts",
      "title": "get_corrected_counts: Retrieve the Corrected Count Matrix",
      "topics": [
        "get_corrected_counts"
      ]
    },
    {
      "page": "PlotComparison",
      "title": "PlotComparison: Create Volcano Plot for Differential Results",
      "topics": [
        "PlotComparison"
      ]
    },
    {
      "page": "PlotFractions",
      "title": "PlotFractions: Visualize Fraction Proportions",
      "topics": [
        "PlotFractions"
      ]
    },
    {
      "page": "polysome_annotation",
      "title": "Polysome profiling annotation example",
      "topics": [
        "polysome_annotation"
      ]
    },
    {
      "page": "subcellular_annotation",
      "title": "Subcellular fractionation annotation example",
      "topics": [
        "subcellular_annotation"
      ]
    }
  ],
  "_rundeps": [
    "aod",
    "cli",
    "codetools",
    "cpp11",
    "digest",
    "dplyr",
    "farver",
    "future",
    "future.apply",
    "generics",
    "ggplot2",
    "globals",
    "glue",
    "gtable",
    "isoband",
    "labeling",
    "lifecycle",
    "listenv",
    "magrittr",
    "matrixStats",
    "nnls",
    "parallelly",
    "pillar",
    "pkgconfig",
    "purrr",
    "R6",
    "RColorBrewer",
    "rlang",
    "S7",
    "scales",
    "stringi",
    "stringr",
    "tibble",
    "tidyr",
    "tidyselect",
    "utf8",
    "vctrs",
    "viridisLite",
    "withr"
  ],
  "_vignettes": [
    {
      "source": "FracFixR-intro.Rmd",
      "filename": "FracFixR-intro.html",
      "title": "Introduction to FracFixR",
      "author": "Alice Cleynen, Agin Ravindran, Nikolay Shirokikh",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Introduction",
        "Installation",
        "Quick Start Example",
        "Creating Example Data",
        "Running FracFixR",
        "Understanding the Output",
        "Visualizing Fraction Proportions",
        "Differential Proportion Testing",
        "Interpreting Results",
        "Creating a Volcano Plot",
        "Data Requirements",
        "Session Info",
        "References"
      ],
      "created": "2025-10-21 17:40:02",
      "modified": "2025-10-21 17:40:02",
      "commits": 1
    }
  ],
  "_score": 2.3010299956639813,
  "_indexed": true,
  "_nocasepkg": "fracfixr",
  "_universes": [
    "cran"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.1.0",
      "date": "2026-05-11T10:43:18.000Z",
      "distro": "noble",
      "commit": "d77c96c6362c3c75d0a9c0d67580f42ac21e14c7",
      "fileid": "54128fbba7e48c35d20cace03007e3a67c68a20385972fc45053daedc4f2715e",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/cran/actions/runs/25665093874"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "1.1.0",
      "date": "2026-05-11T10:43:15.000Z",
      "distro": "noble",
      "commit": "d77c96c6362c3c75d0a9c0d67580f42ac21e14c7",
      "fileid": "bcc7361615083b0c9df96e0c1f3a29d3ba31aa31471a8473bf30bc6e8a1a233c",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/cran/actions/runs/25665093874"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.1.0",
      "date": "2026-05-22T11:18:56.000Z",
      "commit": "d77c96c6362c3c75d0a9c0d67580f42ac21e14c7",
      "fileid": "6b075d0e8e85859137841033ef3a710524bd0d88102b0dee64d30effe69eda44",
      "status": "success",
      "buildurl": "https://github.com/r-universe/cran/actions/runs/25665093874"
    }
  ]
}