{
  "_id": "6ad74d824b18b90089999b61",
  "Package": "PROcess",
  "Title": "Ciphergen SELDI-TOF Processing",
  "Version": "1.89.0",
  "Date": "2005-11-06",
  "Author": "Xiaochun Li",
  "Description": "A package for processing protein mass spectrometry data.",
  "biocViews": "ImmunoOncology, MassSpectrometry, Proteomics",
  "Maintainer": "Xiaochun Li <xiaochun@jimmy.harvard.edu>",
  "License": "Artistic-2.0",
  "LazyLoad": "yes",
  "Repository": "https://bioc.r-universe.dev",
  "Date/Publication": "2026-04-28 12:30:29 UTC",
  "RemoteUrl": "https://github.com/bioc/PROcess",
  "RemoteRef": "HEAD",
  "RemoteSha": "b8e4c89b877ad9de703f90d28fc222e8e7ec4b7d",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-10-20 10:53:47 UTC",
    "User": "root"
  },
  "_user": "bioc",
  "_type": "src",
  "_file": "PROcess_1.89.0.tar.gz",
  "_fileid": "https://r2.ropensci.org/d856091e8ffa17aed502a4706d2f0cb8c20daf9a62f12e32235880a7c772a009",
  "_filesize": 2134806,
  "_sha256": "d856091e8ffa17aed502a4706d2f0cb8c20daf9a62f12e32235880a7c772a009",
  "_expires": "2027-01-28T11:16:16.000Z",
  "_created": "2026-10-20T10:53:47.000Z",
  "_published": "2026-10-20T11:16:18.612Z",
  "_upstream": "https://github.com/bioc/PROcess",
  "_status": "success",
  "_maintainer": {
    "name": "Xiaochun Li",
    "email": "xiaochun@jimmy.harvard.edu"
  },
  "_jobs": [
    {
      "job": 118589044021,
      "time": 128,
      "config": "bioc-checks",
      "r": "4.6.1",
      "check": "ERROR",
      "artifact": "12259626898"
    },
    {
      "job": 118589043928,
      "time": 193,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "NOTE",
      "artifact": "12258734932"
    },
    {
      "job": 118589043982,
      "time": 195,
      "config": "linux-release-x86_64",
      "r": "4.6.1",
      "check": "NOTE",
      "artifact": "12258499800"
    },
    {
      "job": 118589044248,
      "time": 117,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "NOTE",
      "artifact": "12260058403"
    },
    {
      "job": 118589044088,
      "time": 108,
      "config": "macos-release-arm64",
      "r": "4.6.1",
      "check": "NOTE",
      "artifact": "12259569167"
    },
    {
      "job": 118586610212,
      "time": 382,
      "config": "source",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "12258289857"
    },
    {
      "job": 118589044038,
      "time": 77,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "12259740114"
    },
    {
      "job": 118589044230,
      "time": 82,
      "config": "windows-devel-x86_64",
      "r": "4.7.0",
      "check": "NOTE",
      "artifact": "12258334724"
    },
    {
      "job": 118589044033,
      "time": 77,
      "config": "windows-oldrel-x86_64",
      "r": "4.5.3",
      "check": "NOTE",
      "artifact": "12259332301"
    },
    {
      "job": 118589044056,
      "time": 67,
      "config": "windows-release-x86_64",
      "r": "4.6.1",
      "check": "NOTE",
      "artifact": "12258534546"
    }
  ],
  "_bioccheck": {
    "error": 2,
    "warning": 5,
    "note": 9
  },
  "_buildurl": "https://github.com/r-universe/bioc/actions/runs/39410404634",
  "_commit": {
    "id": "b8e4c89b877ad9de703f90d28fc222e8e7ec4b7d",
    "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": 1777379429
  },
  "_distro": "resolute",
  "_host": "GitHub-Actions",
  "_registered": true,
  "_dependencies": [
    {
      "package": "Icens",
      "role": "Depends"
    },
    {
      "package": "graphics",
      "role": "Imports"
    },
    {
      "package": "grDevices",
      "role": "Imports"
    },
    {
      "package": "Icens",
      "role": "Imports"
    },
    {
      "package": "stats",
      "role": "Imports"
    },
    {
      "package": "utils",
      "role": "Imports"
    }
  ],
  "_owner": "bioc",
  "_selfowned": true,
  "_usedby": 0,
  "_updates": [
    {
      "week": "2025-44",
      "n": 2
    },
    {
      "week": "2026-18",
      "n": 2
    }
  ],
  "_tags": [],
  "_bioc": [
    {
      "branch": "devel",
      "version": "1.89.0",
      "bioc": "3.24",
      "repository": "bioc"
    },
    {
      "branch": "release",
      "version": "1.88.0",
      "bioc": "3.23",
      "repository": "bioc"
    }
  ],
  "_topics": [
    "immunooncology",
    "massspectrometry",
    "proteomics"
  ],
  "_userbio": {
    "uuid": 2286807,
    "type": "organization",
    "name": "Bioconductor",
    "followers": 479,
    "description": "Software for the analysis and comprehension of high-throughput genomic data"
  },
  "_downloads": {
    "count": 674,
    "source": "https://www.bioconductor.org/packages/stats/bioc/PROcess"
  },
  "_mentions": 15,
  "_searchresults": 2288,
  "_rbuild": "4.6.1",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/manual.pdf",
    "extra/PROcess.html"
  ],
  "_realowner": "bioc",
  "_cranurl": false,
  "_exports": [
    "align",
    "avesd",
    "aveSpec",
    "binning",
    "bslnoff",
    "gelmap",
    "getMzs",
    "getPeaks",
    "getPeaks2",
    "intg",
    "is.multiple",
    "isPeak",
    "lnn",
    "noise",
    "peaks",
    "pk2bmkr",
    "quality",
    "read.files",
    "renorm",
    "rmBaseline",
    "sigma",
    "specZoom"
  ],
  "_help": [
    {
      "page": "align",
      "title": "Align peaks for a specified precision.",
      "topics": [
        "align"
      ]
    },
    {
      "page": "avesd",
      "title": "Compute the Average Standard Deviation for a Set of Spectra and a Given Cutoff Point",
      "topics": [
        "avesd"
      ]
    },
    {
      "page": "aveSpec",
      "title": "Compute mean spectrum of a set of spectra",
      "topics": [
        "aveSpec"
      ]
    },
    {
      "page": "binning",
      "title": "Binning the Mass Spectrometry Data",
      "topics": [
        "binning"
      ]
    },
    {
      "page": "bslnoff",
      "title": "Baseline Substraction",
      "topics": [
        "bslnoff"
      ]
    },
    {
      "page": "gelmap",
      "title": "Plot the image of a set of spectra",
      "topics": [
        "gelmap"
      ]
    },
    {
      "page": "getMzs",
      "title": "Extract M/Z values from the biomarker dataframe.",
      "topics": [
        "getMzs"
      ]
    },
    {
      "page": "getPeaks",
      "title": "Peak Detection",
      "topics": [
        "getPeaks"
      ]
    },
    {
      "page": "getPeaks2",
      "title": "Quantify peaks for individual spectra.",
      "topics": [
        "getPeaks2"
      ]
    },
    {
      "page": "intg",
      "title": "Integration",
      "topics": [
        "intg"
      ]
    },
    {
      "page": "is.multiple",
      "title": "Find multiple-charged polypeptides.",
      "topics": [
        "is.multiple"
      ]
    },
    {
      "page": "isPeak",
      "title": "Locate Peaks in a Spectrum",
      "topics": [
        "isPeak"
      ]
    },
    {
      "page": "lnn",
      "title": "Estimate Signal and Variation of a Spectrum",
      "topics": [
        "lnn"
      ]
    },
    {
      "page": "peaks",
      "title": "Peak Detection",
      "topics": [
        "noise",
        "peaks",
        "sigma"
      ]
    },
    {
      "page": "pk2bmkr",
      "title": "Find Biomarkers.",
      "topics": [
        "pk2bmkr"
      ]
    },
    {
      "page": "quality",
      "title": "Quality Check on a Set of Spectra",
      "topics": [
        "quality"
      ]
    },
    {
      "page": "read.files",
      "title": "Read a Spectrum from a Comma Deliminated File",
      "topics": [
        "read.files"
      ]
    },
    {
      "page": "renorm",
      "title": "Renormalize Spectra",
      "topics": [
        "renorm"
      ]
    },
    {
      "page": "rmBaseline",
      "title": "Batch Baseline Subtraction.",
      "topics": [
        "rmBaseline"
      ]
    },
    {
      "page": "specZoom",
      "title": "Plotting a Spectrum with Peaks",
      "topics": [
        "specZoom"
      ]
    }
  ],
  "_rundeps": [
    "Icens",
    "lattice",
    "Matrix",
    "survival"
  ],
  "_vignettes": [
    {
      "source": "howtoprocess.Rnw",
      "filename": "howtoprocess.pdf",
      "title": "HOWTO PROcess",
      "engine": "utils::Sweave",
      "headings": [
        "Introduction",
        "Baseline subtraction",
        "Peak detection",
        "Batch operation",
        "An alternative way to obtain proto-biomarkers"
      ],
      "created": "2013-11-01 19:50:54",
      "modified": "2013-11-01 19:50:54",
      "commits": 1
    }
  ],
  "_score": 6.660486015784968,
  "_indexed": true,
  "_nocasepkg": "process",
  "_universes": [
    "bioc"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.89.0",
      "date": "2026-10-20T10:56:53.000Z",
      "distro": "resolute",
      "commit": "b8e4c89b877ad9de703f90d28fc222e8e7ec4b7d",
      "fileid": "https://r2.ropensci.org/4fa398d0b322b90353a68f6a5fba75d8dbd4a758fe99a32951e17ae4593e7296",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/39410404634"
    },
    {
      "r": "4.6.1",
      "os": "linux",
      "version": "1.89.0",
      "date": "2026-10-20T10:57:06.000Z",
      "distro": "resolute",
      "commit": "b8e4c89b877ad9de703f90d28fc222e8e7ec4b7d",
      "fileid": "https://r2.ropensci.org/0a6054114275b9835c9cf19fe142d1a2d9ed412cb813f29cc8398a20d02cc67c",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/39410404634"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.89.0",
      "date": "2026-10-20T11:15:28.000Z",
      "commit": "b8e4c89b877ad9de703f90d28fc222e8e7ec4b7d",
      "fileid": "https://r2.ropensci.org/fe67d8318fa4aa6b3bf0fa30df3bad4d250804cd8d30e0658a8a3521984bfc76",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/39410404634"
    },
    {
      "r": "4.6.1",
      "os": "mac",
      "version": "1.89.0",
      "date": "2026-10-20T11:09:59.000Z",
      "commit": "b8e4c89b877ad9de703f90d28fc222e8e7ec4b7d",
      "fileid": "https://r2.ropensci.org/dbd8b8a6f0eeebc7ee3e177e5bb146d192dee6be9b5b22088a9ea7c4e2f9877d",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/39410404634"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.89.0",
      "date": "2026-10-20T10:55:22.000Z",
      "commit": "b8e4c89b877ad9de703f90d28fc222e8e7ec4b7d",
      "fileid": "https://r2.ropensci.org/5126d99c07c98d2c3f7356413b37a22f59e5eb74a43a56246336a483cc723be3",
      "status": "success",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/39410404634"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.89.0",
      "date": "2026-10-20T10:54:55.000Z",
      "commit": "b8e4c89b877ad9de703f90d28fc222e8e7ec4b7d",
      "fileid": "https://r2.ropensci.org/58a8ebc5455eeeab791d257a5cab11bd75db06d932140d62f0f0beb10386cb4e",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/39410404634"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "1.89.0",
      "date": "2026-10-20T10:54:55.000Z",
      "commit": "b8e4c89b877ad9de703f90d28fc222e8e7ec4b7d",
      "fileid": "https://r2.ropensci.org/62daf9dea66919351e1b79b539c28968843c653b7f05374eede36a05597e6116",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/39410404634"
    },
    {
      "r": "4.6.1",
      "os": "win",
      "version": "1.89.0",
      "date": "2026-10-20T10:54:45.000Z",
      "commit": "b8e4c89b877ad9de703f90d28fc222e8e7ec4b7d",
      "fileid": "https://r2.ropensci.org/9c66be24e5b2d92b8c946ee0c2baca80e564f7783ed858bdfbb878290dcfc4c1",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/39410404634"
    }
  ]
}