{
  "_id": "6acdfebfa14063b82c3ae2c7",
  "Package": "batchCorr",
  "Type": "Package",
  "Title": "Within And Between Batch Correction Of LC-MS Metabolomics Data",
  "Version": "1.3.0",
  "Date": "2020-05-29",
  "Authors@R": "c(\nperson(\"Anton\", \"Ribbenstedt\", email = \"parasitetwin@gmail.com\", role = c(\"cre\"), comment = c(ORCID = \"0000-0002-9985-5644\")),\nperson(\"Carl\", \"Brunius\", email = \"carl.brunius@chalmers.se\", role = c(\"aut\"), comment = c(ORCID = \"0000-0003-3957-870X\")),\nperson(\"Vilhelm\", \"Suksi\", role = c(\"aut\")))",
  "Description": "From the perspective of metabolites as the continuation of\nthe central dogma of biology, metabolomics provides the closest\nlink to many phenotypes of interest. This makes metabolomics\nresearch promising in teasing apart the complexities of living\nsystems. However, due to experimental reasons, the data\nincludes non-biological variation which limits quality and\nreproducibility, especially if the data is obtained from\nseveral batches. The batchCorr package reduces unwanted\nvariation by way of between-batch alignment, within-batch drift\ncorrection and between-batch normalization using batch-specific\nquality control samples and long-term reference QC samples.\nPlease see the associated article for more thorough\ndescriptions of algorithms.",
  "License": "GPL-2",
  "biocViews": "BiomedicalInformatics, Metabolomics, MassSpectrometry,\nBatchEffect, Normalization, QualityControl",
  "LazyData": "FALSE",
  "RoxygenNote": "7.3.2",
  "Encoding": "UTF-8",
  "URL": "https://github.com/MetaboComp/batchCorr",
  "BugReports": "https://github.com/MetaboComp/batchCorr/issues",
  "VignetteBuilder": "knitr",
  "Config/pak/sysreqs": "zlib1g-dev",
  "Repository": "https://bioc.r-universe.dev",
  "Date/Publication": "2026-04-28 13:05:12 UTC",
  "RemoteUrl": "https://github.com/bioc/batchCorr",
  "RemoteRef": "HEAD",
  "RemoteSha": "7e4bfeb89df7bb83cbd71205ddc81262b3c5a250",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-10-13 09:31:40 UTC",
    "User": "root"
  },
  "Author": "Anton Ribbenstedt [cre] (ORCID:\n<https://orcid.org/0000-0002-9985-5644>),\nCarl Brunius [aut] (ORCID: <https://orcid.org/0000-0003-3957-870X>),\nVilhelm Suksi [aut]",
  "Maintainer": "Anton Ribbenstedt <parasitetwin@gmail.com>",
  "_user": "bioc",
  "_type": "src",
  "_file": "batchCorr_1.3.0.tar.gz",
  "_fileid": "https://r2.ropensci.org/25e4d2d99865c00c5bd33a5e13a43993e0db00263b5708c1211b5d86a8f34c13",
  "_filesize": 817105,
  "_sha256": "25e4d2d99865c00c5bd33a5e13a43993e0db00263b5708c1211b5d86a8f34c13",
  "_expires": "2027-01-21T09:49:49.000Z",
  "_created": "2026-10-13T09:31:40.000Z",
  "_published": "2026-10-13T09:49:51.001Z",
  "_buildurl": "https://github.com/r-universe/bioc/actions/runs/38376415443",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_bioccheck": {
    "error": 0,
    "warning": 0,
    "note": 3
  },
  "_upstream": "https://github.com/bioc/batchCorr",
  "_commit": {
    "id": "7e4bfeb89df7bb83cbd71205ddc81262b3c5a250",
    "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": 1777381512
  },
  "_maintainer": {
    "name": "Anton Ribbenstedt",
    "email": "parasitetwin@gmail.com",
    "login": "parasitetwin",
    "description": "PhD in Applied Environmental Science",
    "uuid": 23104530,
    "orcid": "0000-0002-9985-5644"
  },
  "_distro": "resolute",
  "_jobs": [
    {
      "job": 115227825602,
      "time": 173,
      "config": "bioc-checks",
      "r": "4.6.1",
      "check": "NOTE",
      "artifact": "11801698275"
    },
    {
      "job": 115227825791,
      "time": 449,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "11801918213"
    },
    {
      "job": 115227825747,
      "time": 386,
      "config": "linux-release-x86_64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11801428787"
    },
    {
      "job": 115227825827,
      "time": 368,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "11802311699"
    },
    {
      "job": 115227825872,
      "time": 388,
      "config": "macos-release-arm64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11802866137"
    },
    {
      "job": 115225954245,
      "time": 269,
      "config": "source",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11801408023"
    },
    {
      "job": 115227825721,
      "time": 121,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "11801478052"
    },
    {
      "job": 115227825748,
      "time": 401,
      "config": "windows-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "11802215407"
    },
    {
      "job": 115227825837,
      "time": 406,
      "config": "windows-oldrel-x86_64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "11802315185"
    },
    {
      "job": 115227825810,
      "time": 409,
      "config": "windows-release-x86_64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11801932975"
    }
  ],
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 4.4.0",
      "role": "Depends"
    },
    {
      "package": "SummarizedExperiment",
      "role": "Depends"
    },
    {
      "package": "reshape",
      "role": "Imports"
    },
    {
      "package": "mclust",
      "role": "Imports"
    },
    {
      "package": "BiocParallel",
      "role": "Imports"
    },
    {
      "package": "methods",
      "role": "Imports"
    },
    {
      "package": "BiocStyle",
      "role": "Suggests"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    },
    {
      "package": "testthat",
      "role": "Suggests"
    }
  ],
  "_owner": "bioc",
  "_selfowned": true,
  "_usedby": 0,
  "_updates": [
    {
      "week": "2025-44",
      "n": 2
    },
    {
      "week": "2026-18",
      "n": 2
    }
  ],
  "_tags": [],
  "_bioc": [
    {
      "branch": "devel",
      "version": "1.3.0",
      "bioc": "3.24",
      "repository": "bioc"
    },
    {
      "branch": "release",
      "version": "1.2.0",
      "bioc": "3.23",
      "repository": "bioc"
    }
  ],
  "_topics": [
    "biomedicalinformatics",
    "metabolomics",
    "massspectrometry",
    "batcheffect",
    "normalization",
    "qualitycontrol"
  ],
  "_stars": 0,
  "_contributors": [
    {
      "user": "vsuksi",
      "count": 24,
      "uuid": 104491648
    },
    {
      "user": "parasitetwin",
      "count": 22,
      "uuid": 23104530
    },
    {
      "user": "metabocomp",
      "count": 9,
      "uuid": 110531427
    }
  ],
  "_userbio": {
    "uuid": 2286807,
    "type": "organization",
    "name": "Bioconductor",
    "followers": 476,
    "description": "Software for the analysis and comprehension of high-throughput genomic data"
  },
  "_downloads": {
    "count": 246,
    "source": "https://www.bioconductor.org/packages/stats/bioc/batchCorr"
  },
  "_devurl": "https://github.com/metabocomp/batchcorr",
  "_searchresults": 14,
  "_rbuild": "4.6.1",
  "_assets": [
    "extra/batchCorr.html",
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/manual.pdf",
    "extra/NEWS.html",
    "extra/NEWS.txt",
    "extra/readme.html",
    "extra/readme.md"
  ],
  "_homeurl": "https://github.com/metabocomp/batchcorr",
  "_realowner": "bioc",
  "_cranurl": false,
  "_exports": [
    "alignBatches",
    "correctDrift",
    "getBatch",
    "mergeBatches",
    "normalizeBatches",
    "peakInfo"
  ],
  "_datasets": [
    {
      "name": "meta",
      "title": "ThreeBatchData",
      "object": "ThreeBatchData",
      "file": "ThreeBatchData.rda",
      "class": [
        "data.frame"
      ],
      "fields": [
        "batch",
        "grp",
        "inj"
      ],
      "rows": 90,
      "table": true,
      "tojson": true
    },
    {
      "name": "PTfill",
      "title": "ThreeBatchData",
      "object": "ThreeBatchData",
      "file": "ThreeBatchData.rda",
      "class": [
        "matrix",
        "array"
      ],
      "fields": [],
      "rows": 90,
      "table": true,
      "tojson": true
    },
    {
      "name": "PTnofill",
      "title": "ThreeBatchData",
      "object": "ThreeBatchData",
      "file": "ThreeBatchData.rda",
      "class": [
        "matrix",
        "array"
      ],
      "fields": [],
      "rows": 90,
      "table": true,
      "tojson": true
    }
  ],
  "_help": [
    {
      "page": "alignBatches",
      "title": "Between-batch alignment of features",
      "topics": [
        "alignBatches",
        "alignBatches,ANY,ANY-method",
        "alignBatches,SummarizedExperiment,SummarizedExperiment-method"
      ]
    },
    {
      "page": "correctDrift",
      "title": "Within-batch signal intensity drift correction",
      "topics": [
        "correctDrift",
        "correctDrift,ANY-method",
        "correctDrift,SummarizedExperiment-method"
      ]
    },
    {
      "page": "getBatch",
      "title": "Extract specific batch from peaktable and metadata",
      "topics": [
        "getBatch"
      ]
    },
    {
      "page": "mergeBatches",
      "title": "Merge batches after drift correction",
      "topics": [
        "mergeBatches"
      ]
    },
    {
      "page": "normalizeBatches",
      "title": "Between-batch normalisation",
      "topics": [
        "normalizeBatches",
        "normalizeBatches,ANY-method",
        "normalizeBatches,SummarizedExperiment-method"
      ]
    },
    {
      "page": "peakInfo",
      "title": "Extract m/z and rt from peak table",
      "topics": [
        "peakInfo"
      ]
    },
    {
      "page": "ThreeBatchData",
      "title": "ThreeBatchData",
      "topics": [
        "meta",
        "PTfill",
        "PTnofill",
        "ThreeBatchData"
      ]
    }
  ],
  "_readme": "https://github.com/bioc/batchCorr/raw/HEAD/README.md",
  "_rundeps": [
    "abind",
    "BH",
    "Biobase",
    "BiocGenerics",
    "BiocParallel",
    "codetools",
    "cpp11",
    "DelayedArray",
    "formatR",
    "futile.logger",
    "futile.options",
    "generics",
    "GenomicRanges",
    "IRanges",
    "lambda.r",
    "lattice",
    "Matrix",
    "MatrixGenerics",
    "matrixStats",
    "mclust",
    "plyr",
    "Rcpp",
    "reshape",
    "S4Arrays",
    "S4Vectors",
    "Seqinfo",
    "snow",
    "SparseArray",
    "SummarizedExperiment",
    "XVector"
  ],
  "_vignettes": [
    {
      "source": "Introduction.rmd",
      "filename": "Introduction.html",
      "title": "General introduction",
      "author": "Carl Brunius, Vilhelm Suksi",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Motivation",
        "Installation",
        "Data",
        "How it works",
        "Between-batch alignment",
        "Within-batch drift correction",
        "Between-batch normalization",
        "Authors & Acknowledgements",
        "Session information",
        "References"
      ],
      "created": "2024-06-04 11:48:40",
      "modified": "2025-06-14 14:25:14",
      "commits": 12
    }
  ],
  "_score": 4.447158031342219,
  "_indexed": true,
  "_nocasepkg": "batchcorr",
  "_universes": [
    "bioc",
    "parasitetwin",
    "metabocomp"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.3.0",
      "date": "2026-10-13T09:34:58.000Z",
      "distro": "resolute",
      "commit": "7e4bfeb89df7bb83cbd71205ddc81262b3c5a250",
      "fileid": "https://r2.ropensci.org/952e424adc28e043aa83756d929d624676dc3306773f46b2e4ea243ef7e417d0",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/38376415443"
    },
    {
      "r": "4.6.1",
      "os": "linux",
      "version": "1.3.0",
      "date": "2026-10-13T09:35:07.000Z",
      "distro": "resolute",
      "commit": "7e4bfeb89df7bb83cbd71205ddc81262b3c5a250",
      "fileid": "https://r2.ropensci.org/83cec77f1bfd0849a79eae5d5b876e188f63ea2a95119f49dd16c09862ccc39f",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/38376415443"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.3.0",
      "date": "2026-10-13T09:42:33.000Z",
      "commit": "7e4bfeb89df7bb83cbd71205ddc81262b3c5a250",
      "fileid": "https://r2.ropensci.org/c7ce4b76e1e679a5c7e028502055cb7af0f35464d05ac53a8bd85e244ce3c798",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/38376415443"
    },
    {
      "r": "4.6.1",
      "os": "mac",
      "version": "1.3.0",
      "date": "2026-10-13T09:44:23.000Z",
      "commit": "7e4bfeb89df7bb83cbd71205ddc81262b3c5a250",
      "fileid": "https://r2.ropensci.org/3b5992bf2300a5bd1238ba7ef8abdc115dbcf0e2e60233e9c53ecd3f07d9779b",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/38376415443"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.3.0",
      "date": "2026-10-13T09:34:05.000Z",
      "commit": "7e4bfeb89df7bb83cbd71205ddc81262b3c5a250",
      "fileid": "https://r2.ropensci.org/fe5445b974bd9f45364db2779c198ab2f8ca94f202587daac8d9152dd8f7c865",
      "status": "success",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/38376415443"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.3.0",
      "date": "2026-10-13T09:33:09.000Z",
      "commit": "7e4bfeb89df7bb83cbd71205ddc81262b3c5a250",
      "fileid": "https://r2.ropensci.org/9a7118b4d008e762efce9425bfc7c8315ba7aa409c05418b577717687edaee1c",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/38376415443"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "1.3.0",
      "date": "2026-10-13T09:33:24.000Z",
      "commit": "7e4bfeb89df7bb83cbd71205ddc81262b3c5a250",
      "fileid": "https://r2.ropensci.org/ea2de953e620be3d3cec8f4fd8887920598c02b2a177b41f6e4e2efe1a2fa3d5",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/38376415443"
    },
    {
      "r": "4.6.1",
      "os": "win",
      "version": "1.3.0",
      "date": "2026-10-13T09:33:25.000Z",
      "commit": "7e4bfeb89df7bb83cbd71205ddc81262b3c5a250",
      "fileid": "https://r2.ropensci.org/38963d01b0c86b77ab32bbf50074322855bd4ea9c33e7e8d167b4576ec8ed562",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/38376415443"
    }
  ]
}