{
  "_id": "6a226fe2cd65a98ecbd486ca",
  "Package": "FISHalyseR",
  "Type": "Package",
  "Title": "FISHalyseR a package for automated FISH quantification",
  "Version": "1.47.0",
  "Date": "2015-04-08",
  "Author": "Karesh Arunakirinathan <akaresh88@gmail.com>, Andreas Heindl\n<andreas.heindl@icr.ac.uk>",
  "Maintainer": "Karesh Arunakirinathan <akaresh88@gmail.com>, Andreas\nHeindl <andreas.heindl@icr.ac.uk>",
  "Description": "FISHalyseR provides functionality to process and analyse\ndigital cell culture images, in particular to quantify FISH\nprobes within nuclei. Furthermore, it extract the spatial\nlocation of each nucleus as well as each probe enabling spatial\nco-localisation analysis.",
  "VignetteBuilder": "knitr",
  "License": "Artistic-2.0",
  "biocViews": "CellBiology",
  "Config/pak/sysreqs": "cmake libfftw3-dev make libjpeg-dev libpng-dev\nlibtiff-dev libuv1-dev",
  "Repository": "https://bioc.r-universe.dev",
  "Date/Publication": "2026-04-28 12:41:02 UTC",
  "RemoteUrl": "https://github.com/bioc/FISHalyseR",
  "RemoteRef": "HEAD",
  "RemoteSha": "5e52a472edf644fe0c2ee18f3006ca47d799660c",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-06-05 06:39:16 UTC",
    "User": "root"
  },
  "MD5sum": "64bbc6f3b4b6908fb147c4b8e167774e",
  "_user": "bioc",
  "_type": "src",
  "_file": "FISHalyseR_1.47.0.tar.gz",
  "_fileid": "042f2b389d3ec7b972012b88c8a9d239985b73bbf74194cabe88d2dc283cd4c6",
  "_filesize": 903116,
  "_sha256": "042f2b389d3ec7b972012b88c8a9d239985b73bbf74194cabe88d2dc283cd4c6",
  "_created": "2026-06-05T06:39:16.000Z",
  "_published": "2026-06-05T06:42:42.026Z",
  "_jobs": [
    {
      "job": 79677300455,
      "time": 157,
      "config": "bioc-checks",
      "r": "4.6.0",
      "check": "ERROR",
      "artifact": "7430428003"
    },
    {
      "job": 79677300504,
      "time": 147,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "WARNING",
      "artifact": "7430425836"
    },
    {
      "job": 79677300514,
      "time": 176,
      "config": "linux-release-x86_64",
      "r": "4.6.0",
      "check": "WARNING",
      "artifact": "7430432704"
    },
    {
      "job": 79677300473,
      "time": 107,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "WARNING",
      "artifact": "7430416267"
    },
    {
      "job": 79677300498,
      "time": 85,
      "config": "macos-release-arm64",
      "r": "4.6.0",
      "check": "WARNING",
      "artifact": "7430410592"
    },
    {
      "job": 79676922585,
      "time": 188,
      "config": "source",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7430389711"
    },
    {
      "job": 79677300468,
      "time": 113,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7430417490"
    },
    {
      "job": 79677300531,
      "time": 89,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "WARNING",
      "artifact": "7430411630"
    },
    {
      "job": 79677300502,
      "time": 88,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "WARNING",
      "artifact": "7430411514"
    },
    {
      "job": 79677300529,
      "time": 91,
      "config": "windows-release",
      "r": "4.6.0",
      "check": "WARNING",
      "artifact": "7430411769"
    }
  ],
  "_bioccheck": {
    "error": 2,
    "warning": 2,
    "note": 12
  },
  "_buildurl": "https://github.com/r-universe/bioc/actions/runs/26999624845",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_upstream": "https://github.com/bioc/FISHalyseR",
  "_commit": {
    "id": "5e52a472edf644fe0c2ee18f3006ca47d799660c",
    "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": 1777380062
  },
  "_maintainer": {
    "name": "Karesh Arunakirinathan",
    "email": "andreas.heindl@icr.ac.uk"
  },
  "_distro": "noble",
  "_registered": true,
  "_dependencies": [
    {
      "package": "EBImage",
      "role": "Depends"
    },
    {
      "package": "abind",
      "role": "Depends"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    }
  ],
  "_owner": "bioc",
  "_selfowned": true,
  "_usedby": 0,
  "_updates": [
    {
      "week": "2025-44",
      "n": 2
    },
    {
      "week": "2026-18",
      "n": 2
    }
  ],
  "_tags": [],
  "_bioc": [
    {
      "branch": "devel",
      "version": "1.47.0",
      "bioc": "3.24"
    },
    {
      "branch": "release",
      "version": "1.46.0",
      "bioc": "3.23"
    }
  ],
  "_topics": [
    "cellbiology"
  ],
  "_userbio": {
    "uuid": 2286807,
    "type": "organization",
    "name": "Bioconductor",
    "description": "Software for the analysis and comprehension of high-throughput genomic data"
  },
  "_downloads": {
    "count": 324,
    "source": "https://www.bioconductor.org/packages/stats/bioc/FISHalyseR"
  },
  "_searchresults": 8,
  "_rbuild": "4.6.0",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/FISHalyseR.html",
    "extra/NEWS.html",
    "extra/NEWS.txt",
    "manual.pdf"
  ],
  "_realowner": "bioc",
  "_cranurl": false,
  "_exports": [
    "analyseParticles",
    "calculateMaxEntropy",
    "calculateThreshold",
    "computeIlluminationCorrection",
    "processFISH"
  ],
  "_help": [
    {
      "page": "analyseParticles",
      "title": "Analyse",
      "topics": [
        "analyseParticles"
      ]
    },
    {
      "page": "calculateMaxEntropy",
      "title": "Max Entropy thresholding",
      "topics": [
        "calculateMaxEntropy"
      ]
    },
    {
      "page": "calculateThreshold",
      "title": "Compute threshold using Otsu's method",
      "topics": [
        "calculateThreshold"
      ]
    },
    {
      "page": "computeIlluminationCorrection",
      "title": "Multidimensional Illumination Correction",
      "topics": [
        "computeIlluminationCorrection"
      ]
    },
    {
      "page": "processFISH",
      "title": "FISHalyseR - Automated fluorescence in situ hybridisation quantification in R",
      "topics": [
        "processFISH"
      ]
    }
  ],
  "_rundeps": [
    "abind",
    "base64enc",
    "BiocGenerics",
    "bitops",
    "bslib",
    "cachem",
    "cli",
    "digest",
    "EBImage",
    "evaluate",
    "fastmap",
    "fftwtools",
    "fontawesome",
    "fs",
    "generics",
    "highr",
    "htmltools",
    "htmlwidgets",
    "jpeg",
    "jquerylib",
    "jsonlite",
    "knitr",
    "lattice",
    "lifecycle",
    "locfit",
    "memoise",
    "mime",
    "png",
    "R6",
    "rappdirs",
    "RCurl",
    "rlang",
    "rmarkdown",
    "sass",
    "tiff",
    "tinytex",
    "xfun",
    "yaml"
  ],
  "_vignettes": [
    {
      "source": "FISHalyseR.Rnw",
      "filename": "FISHalyseR.pdf",
      "title": "FISHAlyseR Automated fluorescence in situ hybridisation quantification in R",
      "engine": "knitr::knitr",
      "headings": [],
      "created": "2015-04-01 22:51:05",
      "modified": "2015-04-01 22:51:05",
      "commits": 1
    }
  ],
  "_score": 3.3010299956639813,
  "_indexed": true,
  "_nocasepkg": "fishalyser",
  "_universes": [
    "bioc"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.47.0",
      "date": "2026-06-05T06:41:33.000Z",
      "distro": "noble",
      "commit": "5e52a472edf644fe0c2ee18f3006ca47d799660c",
      "fileid": "33ab948d11a2c3c646af01efbbf514b38456da3358df57c48ff5ebe506399c70",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26999624845"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "1.47.0",
      "date": "2026-06-05T06:42:02.000Z",
      "distro": "noble",
      "commit": "5e52a472edf644fe0c2ee18f3006ca47d799660c",
      "fileid": "e175cb85e2821add8d8ff3e678795bffc1d98963275cb7c24b1047366d350204",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26999624845"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.47.0",
      "date": "2026-06-05T06:40:58.000Z",
      "commit": "5e52a472edf644fe0c2ee18f3006ca47d799660c",
      "fileid": "1136764524b427615f5f5d6c84fce9561af0058596c8acafb9990e8b31afeb9f",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26999624845"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "1.47.0",
      "date": "2026-06-05T06:40:35.000Z",
      "commit": "5e52a472edf644fe0c2ee18f3006ca47d799660c",
      "fileid": "6c2c0462baf327d63f3b02316a25d49da37d5a7f670c8b897450081531ee2db1",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26999624845"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.47.0",
      "date": "2026-06-05T06:41:24.000Z",
      "commit": "5e52a472edf644fe0c2ee18f3006ca47d799660c",
      "fileid": "5ebb4e6451181b1d67179ffeeeb2160a7d5ca6763dcf91cf0a66596e38952bdb",
      "status": "success",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26999624845"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.47.0",
      "date": "2026-06-05T06:40:26.000Z",
      "commit": "5e52a472edf644fe0c2ee18f3006ca47d799660c",
      "fileid": "0063afc0d90330538a9e6c2fa23a91c4c29a1a03757a32d4980b1c8a267ec921",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26999624845"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "1.47.0",
      "date": "2026-06-05T06:40:26.000Z",
      "commit": "5e52a472edf644fe0c2ee18f3006ca47d799660c",
      "fileid": "80fc1c435fd784be9d7adc876e67d8bc03272c9881a901e42b69906895d29e21",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26999624845"
    },
    {
      "r": "4.6.0",
      "os": "win",
      "version": "1.47.0",
      "date": "2026-06-05T06:40:24.000Z",
      "commit": "5e52a472edf644fe0c2ee18f3006ca47d799660c",
      "fileid": "669419b8b7060286297754db8a68aebc9e45264d927e81cb0d45d3bae58f254d",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26999624845"
    }
  ]
}