{
  "_id": "6ab97f9999f7aa8c6aa3aba6",
  "Package": "lfc",
  "Type": "Package",
  "Title": "Log Fold Change Distribution Tools for Working with Ratios of\nCounts",
  "Version": "0.2.4",
  "Authors@R": "c(\nperson(\"Florian\", \"Erhard\", email = \"Florian.Erhard@informatik.uni-regensburg.de\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0002-3574-6983\"))\n)",
  "Description": "Ratios of count data such as obtained from RNA-seq are\nmodelled using Bayesian statistics to derive posteriors for\neffects sizes. This approach is described in Erhard & Zimmer\n(2015) <doi:10.1093/nar/gkv696> and Erhard (2018)\n<doi:10.1093/bioinformatics/bty471>.",
  "License": "Apache License (>= 2)",
  "Encoding": "UTF-8",
  "RoxygenNote": "7.2.1",
  "URL": "https://github.com/erhard-lab/lfc",
  "BugReports": "https://github.com/erhard-lab/lfc/issues",
  "VignetteBuilder": "knitr",
  "biocViews": "Bayesian, Transcriptomics, DifferentialExpression",
  "Repository": "https://erhard-lab.r-universe.dev",
  "Date/Publication": "2026-09-27 16:12:53 UTC",
  "RemoteUrl": "https://github.com/erhard-lab/lfc",
  "RemoteRef": "HEAD",
  "RemoteSha": "74739d9b89d4dc2a1e81f662b7f7b51b01f2b857",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-09-27 20:38:15 UTC",
    "User": "root"
  },
  "Author": "Florian Erhard [aut, cre] (ORCID:\n<https://orcid.org/0000-0002-3574-6983>)",
  "Maintainer": "Florian Erhard <Florian.Erhard@informatik.uni-regensburg.de>",
  "_user": "erhard-lab",
  "_type": "src",
  "_file": "lfc_0.2.4.tar.gz",
  "_fileid": "https://r2.ropensci.org/2c9e463a8ae1d1fafb336ac29e0860147909b682e70b68f815cadcd57dee5900",
  "_filesize": 215611,
  "_sha256": "2c9e463a8ae1d1fafb336ac29e0860147909b682e70b68f815cadcd57dee5900",
  "_expires": "2027-01-05T20:41:59.000Z",
  "_created": "2026-09-27T20:38:15.000Z",
  "_published": "2026-09-27T20:42:01.622Z",
  "_jobs": [
    {
      "job": 108703238103,
      "time": 165,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "10941800920"
    },
    {
      "job": 108703238059,
      "time": 166,
      "config": "linux-release-x86_64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "10940808961"
    },
    {
      "job": 108703238101,
      "time": 125,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "10941068310"
    },
    {
      "job": 108703238071,
      "time": 182,
      "config": "macos-release-arm64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "10941103496"
    },
    {
      "job": 108702408075,
      "time": 284,
      "config": "source",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "10941616951"
    },
    {
      "job": 108703238060,
      "time": 133,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "10941239766"
    },
    {
      "job": 108703238072,
      "time": 84,
      "config": "windows-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "10941955172"
    },
    {
      "job": 108703238100,
      "time": 87,
      "config": "windows-oldrel-x86_64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "10940963606"
    },
    {
      "job": 108703238109,
      "time": 80,
      "config": "windows-release-x86_64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "10941960181"
    }
  ],
  "_host": "GitHub-Actions",
  "_buildurl": "https://github.com/r-universe/erhard-lab/actions/runs/36348474187",
  "_status": "success",
  "_upstream": "https://github.com/erhard-lab/lfc",
  "_commit": {
    "id": "74739d9b89d4dc2a1e81f662b7f7b51b01f2b857",
    "author": "Florian Erhard <florian@erhard-lab.de>",
    "committer": "Florian Erhard <florian@erhard-lab.de>",
    "message": "fixed authors in DESCRIPTION\n",
    "time": 1790525573
  },
  "_maintainer": {
    "name": "Florian Erhard",
    "email": "florian.erhard@informatik.uni-regensburg.de",
    "login": "florianerhard",
    "description": "",
    "uuid": 16842287,
    "orcid": "0000-0002-3574-6983"
  },
  "_distro": "resolute",
  "_registered": true,
  "_dependencies": [
    {
      "package": "stats",
      "role": "Imports"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    },
    {
      "package": "rmarkdown",
      "role": "Suggests"
    },
    {
      "package": "DESeq2",
      "role": "Suggests"
    },
    {
      "package": "SummarizedExperiment",
      "role": "Suggests"
    }
  ],
  "_owner": "erhard-lab",
  "_selfowned": true,
  "_usedby": 2,
  "_updates": [
    {
      "week": "2026-39",
      "n": 1
    }
  ],
  "_tags": [],
  "_topics": [
    "bayesian",
    "transcriptomics",
    "differentialexpression"
  ],
  "_stars": 7,
  "_contributors": [
    {
      "user": "florianerhard",
      "count": 22,
      "uuid": 16842287
    }
  ],
  "_userbio": {
    "uuid": 24650596,
    "type": "organization",
    "name": "erhard-lab",
    "followers": 10
  },
  "_downloads": {
    "count": 313,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/lfc"
  },
  "_devurl": "https://github.com/erhard-lab/lfc",
  "_searchresults": 6,
  "_rbuild": "4.6.1",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/lfc.html",
    "extra/manual.pdf",
    "extra/readme.html",
    "extra/readme.md"
  ],
  "_homeurl": "https://github.com/erhard-lab/lfc",
  "_realowner": "erhard-lab",
  "_cranurl": true,
  "_releases": [
    {
      "version": "0.2.2",
      "date": "2022-04-27"
    },
    {
      "version": "0.2.3",
      "date": "2023-04-19"
    }
  ],
  "_exports": [
    "CenterMedian",
    "dlfc",
    "EmpiricalBayesPrior",
    "ltop",
    "NormLFC",
    "plfc",
    "PsiLFC",
    "PsiLFC.se",
    "ptol",
    "qlfc",
    "results",
    "rlfc"
  ],
  "_help": [
    {
      "page": "CenterMedian",
      "title": "Subtract the median of the given vector (for normalizing log2 fold changes).",
      "topics": [
        "CenterMedian"
      ]
    },
    {
      "page": "dlfc",
      "title": "The log2 fold change distribution",
      "concept": [
        "Log2 fold change distribution"
      ],
      "topics": [
        "dlfc",
        "plfc",
        "qlfc",
        "rlfc"
      ]
    },
    {
      "page": "EmpiricalBayesPrior",
      "title": "Computes the prior parameters (i.e. pseudocounts incremented by 1) for the log2 fold change distribution",
      "topics": [
        "EmpiricalBayesPrior"
      ]
    },
    {
      "page": "ltop",
      "title": "Inverse logit transformation to obtain proportion representation from the log fold change representation.",
      "concept": [
        "Effect size representations"
      ],
      "topics": [
        "ltop"
      ]
    },
    {
      "page": "NormLFC",
      "title": "Standard LFC effect size estimator",
      "topics": [
        "NormLFC"
      ]
    },
    {
      "page": "PsiLFC",
      "title": "Psi LFC effect size estimator",
      "topics": [
        "PsiLFC"
      ]
    },
    {
      "page": "PsiLFC.se",
      "title": "Psi LFC effect size estimator",
      "topics": [
        "PsiLFC.se"
      ]
    },
    {
      "page": "ptol",
      "title": "Logit transformation to obtain the log fold change representation from the proportion representation.",
      "concept": [
        "Effect size representations"
      ],
      "topics": [
        "ptol"
      ]
    },
    {
      "page": "results",
      "title": "Psi LFC effect size estimator for DESeq2",
      "topics": [
        "results"
      ]
    }
  ],
  "_readme": "https://github.com/erhard-lab/lfc/raw/HEAD/README.md",
  "_rundeps": [],
  "_vignettes": [
    {
      "source": "lfc_vignette.Rmd",
      "filename": "lfc_vignette.html",
      "title": "Using LFC",
      "author": "Florian Erhard",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Basic usage",
        "References"
      ],
      "created": "2017-11-03 15:25:51",
      "modified": "2023-04-19 17:46:28",
      "commits": 5
    }
  ],
  "_score": 5.3222192947339195,
  "_indexed": true,
  "_nocasepkg": "lfc",
  "_universes": [
    "erhard-lab",
    "florianerhard"
  ],
  "_previous": "0.2.3",
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "0.2.4",
      "date": "2026-09-27T20:41:00.000Z",
      "distro": "resolute",
      "commit": "74739d9b89d4dc2a1e81f662b7f7b51b01f2b857",
      "fileid": "https://r2.ropensci.org/a4399a303b7ea6a6eb570348d6b013f6bb7855a967acfb8f2f425ab01ecb857c",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/erhard-lab/actions/runs/36348474187"
    },
    {
      "r": "4.6.1",
      "os": "linux",
      "version": "0.2.4",
      "date": "2026-09-27T20:41:00.000Z",
      "distro": "resolute",
      "commit": "74739d9b89d4dc2a1e81f662b7f7b51b01f2b857",
      "fileid": "https://r2.ropensci.org/24bb5d9d51ad9fe99fbb4a7dfd6ac90bb4d0d9a4ffcee5d2d0087c4d2e248553",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/erhard-lab/actions/runs/36348474187"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "0.2.4",
      "date": "2026-09-27T20:40:14.000Z",
      "commit": "74739d9b89d4dc2a1e81f662b7f7b51b01f2b857",
      "fileid": "https://r2.ropensci.org/990ce3280ae0a567e5b65945404f095f08a1d830d624d6643d097fff07c0e10b",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/erhard-lab/actions/runs/36348474187"
    },
    {
      "r": "4.6.1",
      "os": "mac",
      "version": "0.2.4",
      "date": "2026-09-27T20:40:44.000Z",
      "commit": "74739d9b89d4dc2a1e81f662b7f7b51b01f2b857",
      "fileid": "https://r2.ropensci.org/3d06b919118e9ba0cd9f870d3ee4331868f88b022488e640e37137b31cb1c866",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/erhard-lab/actions/runs/36348474187"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "0.2.4",
      "date": "2026-09-27T20:40:45.000Z",
      "commit": "74739d9b89d4dc2a1e81f662b7f7b51b01f2b857",
      "fileid": "https://r2.ropensci.org/be6576cc1a0f2d7710d0fa16473d48172d9b170584a38ae09e963d3f5159e203",
      "status": "success",
      "buildurl": "https://github.com/r-universe/erhard-lab/actions/runs/36348474187"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "0.2.4",
      "date": "2026-09-27T20:39:35.000Z",
      "commit": "74739d9b89d4dc2a1e81f662b7f7b51b01f2b857",
      "fileid": "https://r2.ropensci.org/421a5c93b31d6c4ee56bacd038aa8f9706a375d9f2eeee1a918ee7df253855e0",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/erhard-lab/actions/runs/36348474187"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "0.2.4",
      "date": "2026-09-27T20:39:37.000Z",
      "commit": "74739d9b89d4dc2a1e81f662b7f7b51b01f2b857",
      "fileid": "https://r2.ropensci.org/1a5abc609d50b97b46dbe4cf6b1ab373095a4ee13cf757c9b4fbb3b0ca002bbc",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/erhard-lab/actions/runs/36348474187"
    },
    {
      "r": "4.6.1",
      "os": "win",
      "version": "0.2.4",
      "date": "2026-09-27T20:39:34.000Z",
      "commit": "74739d9b89d4dc2a1e81f662b7f7b51b01f2b857",
      "fileid": "https://r2.ropensci.org/795a5165c33a271518185022b92db4545ca971c159207918b3053ceade2ef921",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/erhard-lab/actions/runs/36348474187"
    }
  ]
}