{
  "_id": "6a2279cfcd65a98ecbd4ca16",
  "Package": "LOMAR",
  "Type": "Package",
  "Title": "Localization Microscopy Data Analysis",
  "Version": "0.5.2",
  "Authors@R": "c(person(\"Jean-Karim\", \"Heriche\", email = \"heriche@embl.de\", role = c(\"cre\",\"aut\"), comment = c(ORCID = \"0000-0001-6867-9425\")))",
  "Maintainer": "Jean-Karim Heriche <heriche@embl.de>",
  "Description": "Read, register and compare point sets from single molecule\nlocalization microscopy.",
  "URL": "https://git.embl.org/heriche/lomar",
  "biocViews": "",
  "License": "GPL-3",
  "Encoding": "UTF-8",
  "ByteCompile": "true",
  "RoxygenNote": "7.3.3",
  "SystemRequirements": "gmp, fftw3",
  "NeedsCompilation": "yes",
  "Packaged": {
    "Date": "2026-06-05 07:14:37 UTC",
    "User": "root"
  },
  "Author": "Jean-Karim Heriche [cre, aut] (ORCID:\n<https://orcid.org/0000-0001-6867-9425>)",
  "Config/pak/sysreqs": "cmake libfftw3-dev libfreetype6-dev\nlibglu1-mesa-dev libgmp3-dev make texlive libicu-dev\nlibjpeg-dev libpng-dev libtiff-dev libuv1-dev libgl1-mesa-dev\nlibssl-dev zlib1g-dev",
  "Repository": "https://jkh1.r-universe.dev",
  "Date/Publication": "2026-02-05 13:41:34 UTC",
  "RemoteUrl": "https://github.com/cran/LOMAR",
  "RemoteRef": "HEAD",
  "RemoteSha": "9a394fc2c648a631d33f9ebe6a10b015f796ae6c",
  "MD5sum": "6a96a016526aa88c486c17ee5d4464aa",
  "_user": "jkh1",
  "_type": "src",
  "_file": "LOMAR_0.5.2.tar.gz",
  "_fileid": "c0c97481e3a0bd3bbfbd042f8076fa9cd3c6c2081a74ba24da055ff7762a1ca8",
  "_filesize": 699581,
  "_sha256": "c0c97481e3a0bd3bbfbd042f8076fa9cd3c6c2081a74ba24da055ff7762a1ca8",
  "_created": "2026-06-05T07:14:37.000Z",
  "_published": "2026-06-05T07:25:03.343Z",
  "_distro": "noble",
  "_jobs": [
    {
      "job": 79681711610,
      "time": 270,
      "config": "linux-devel-arm64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "7430977183"
    },
    {
      "job": 79681711606,
      "time": 250,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "7430971411"
    },
    {
      "job": 79681711647,
      "time": 256,
      "config": "linux-release-arm64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7430974077"
    },
    {
      "job": 79681711644,
      "time": 216,
      "config": "linux-release-x86_64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7430962051"
    },
    {
      "job": 79681711663,
      "time": 228,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "7430980699"
    },
    {
      "job": 79681711589,
      "time": 500,
      "config": "macos-oldrel-x86_64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "7431032469"
    },
    {
      "job": 79681711641,
      "time": 218,
      "config": "macos-release-arm64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7431016510"
    },
    {
      "job": 79681711627,
      "time": 433,
      "config": "macos-release-x86_64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7431047893"
    },
    {
      "job": 79681145434,
      "time": 255,
      "config": "source",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7430903854"
    },
    {
      "job": 79681711616,
      "time": 187,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7430954384"
    },
    {
      "job": 79681711607,
      "time": 192,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "7430956210"
    },
    {
      "job": 79681711588,
      "time": 189,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "7430954958"
    },
    {
      "job": 79681711634,
      "time": 183,
      "config": "windows-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7430953509"
    }
  ],
  "_buildurl": "https://github.com/r-universe/jkh1/actions/runs/27000970171",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_upstream": "https://github.com/cran/LOMAR",
  "_commit": {
    "id": "9a394fc2c648a631d33f9ebe6a10b015f796ae6c",
    "author": "Jean-Karim Heriche <heriche@embl.de>",
    "committer": "cran-robot <csardi.gabor+cran@gmail.com>",
    "message": "version 0.5.2\n",
    "time": 1770298894
  },
  "_maintainer": {
    "name": "Jean-Karim Heriche",
    "email": "heriche@embl.de",
    "login": "jkh1",
    "description": "",
    "uuid": 5235745,
    "orcid": "0000-0001-6867-9425"
  },
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 3.6.0",
      "role": "Depends"
    },
    {
      "package": "BH",
      "version": ">= 1.78.0-0",
      "role": "LinkingTo"
    },
    {
      "package": "Rcpp",
      "role": "LinkingTo"
    },
    {
      "package": "Rcpp",
      "role": "Imports"
    },
    {
      "package": "FNN",
      "role": "Imports"
    },
    {
      "package": "stats",
      "role": "Imports"
    },
    {
      "package": "data.table",
      "role": "Imports"
    },
    {
      "package": "parallel",
      "role": "Imports"
    },
    {
      "package": "doParallel",
      "role": "Imports"
    },
    {
      "package": "foreach",
      "role": "Imports"
    },
    {
      "package": "proxy",
      "role": "Imports"
    },
    {
      "package": "reshape2",
      "role": "Imports"
    },
    {
      "package": "pracma",
      "role": "Imports"
    },
    {
      "package": "transport",
      "role": "Imports"
    },
    {
      "package": "RANN",
      "role": "Imports"
    },
    {
      "package": "ff",
      "role": "Imports"
    },
    {
      "package": "dbscan",
      "role": "Imports"
    },
    {
      "package": "EBImage",
      "role": "Imports"
    },
    {
      "package": "tools",
      "role": "Imports"
    },
    {
      "package": "rhdf5",
      "role": "Imports"
    },
    {
      "package": "mclust",
      "role": "Imports"
    },
    {
      "package": "methods",
      "role": "Imports"
    },
    {
      "package": "abind",
      "role": "Imports"
    },
    {
      "package": "alphashape3d",
      "role": "Imports"
    },
    {
      "package": "testthat",
      "role": "Suggests"
    }
  ],
  "_owner": "cran",
  "_selfowned": true,
  "_usedby": 0,
  "_updates": [
    {
      "week": "2025-52",
      "n": 1
    },
    {
      "week": "2026-06",
      "n": 1
    }
  ],
  "_tags": [
    {
      "name": "0.5.1",
      "date": "2025-12-22"
    },
    {
      "name": "0.5.2",
      "date": "2026-02-05"
    }
  ],
  "_stars": 0,
  "_contributors": [
    {
      "user": "jkh1",
      "count": 7,
      "uuid": 5235745
    }
  ],
  "_userbio": {
    "uuid": 5235745,
    "type": "user",
    "name": "Jean-Karim Hériché"
  },
  "_downloads": {
    "count": 230,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/LOMAR"
  },
  "_searchresults": 1,
  "_topics": [
    "cpp"
  ],
  "_rbuild": "4.6.0",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/LOMAR.html",
    "extra/NEWS.html",
    "extra/NEWS.txt",
    "extra/readme.html",
    "extra/readme.md",
    "manual.pdf"
  ],
  "_realowner": "jkh1",
  "_cranurl": false,
  "_releases": [
    {
      "version": "0.1.0",
      "date": "2021-12-15"
    },
    {
      "version": "0.2.0",
      "date": "2022-02-23"
    },
    {
      "version": "0.2.1",
      "date": "2022-03-16"
    },
    {
      "version": "0.4.0",
      "date": "2023-12-20"
    },
    {
      "version": "0.5.0",
      "date": "2024-09-26"
    },
    {
      "version": "0.5.1",
      "date": "2025-12-22"
    },
    {
      "version": "0.5.2",
      "date": "2026-02-05"
    }
  ],
  "_exports": [
    "apply_transformation",
    "ary2ps",
    "binning",
    "circle_hough_transform",
    "coloc_index",
    "costWd",
    "cpd",
    "crop_point_set",
    "denoise",
    "dist_to_boundary",
    "dist_to_line",
    "downsample",
    "find_elbow",
    "Gaussian_Wd",
    "get_kernel_matrix",
    "get_persistence_diagrams",
    "get_shape",
    "get_surface_area",
    "GMM_Wd",
    "gradientWd",
    "group_events",
    "icp",
    "idx2rowcol",
    "img2ps",
    "jrmpc",
    "local_densities",
    "locprec2cov",
    "locs_from_csv",
    "locs2ps",
    "multiple_registration",
    "point_sets_from_locs",
    "point_sets_from_tiffs",
    "points_from_roi",
    "points2img",
    "ps2ary",
    "pssk",
    "restore_coordinates",
    "rotx",
    "roty",
    "rotz",
    "scale_alpha_shape",
    "shape_features_3d",
    "sliced_Wd",
    "standardize_coordinates",
    "tr",
    "wgmmreg"
  ],
  "_help": [
    {
      "page": "apply_transformation",
      "title": "apply_transformation",
      "topics": [
        "apply_transformation"
      ]
    },
    {
      "page": "ary2ps",
      "title": "ary2ps",
      "topics": [
        "ary2ps"
      ]
    },
    {
      "page": "binning",
      "title": "binning",
      "topics": [
        "binning"
      ]
    },
    {
      "page": "circle_hough_transform",
      "title": "Circle Hough transform",
      "topics": [
        "circle_hough_transform"
      ]
    },
    {
      "page": "coloc_index",
      "title": "coloc_index",
      "topics": [
        "coloc_index"
      ]
    },
    {
      "page": "costWd",
      "title": "costWd",
      "topics": [
        "costWd"
      ]
    },
    {
      "page": "cpd",
      "title": "cpd",
      "topics": [
        "cpd"
      ]
    },
    {
      "page": "crop_point_set",
      "title": "crop_point_set",
      "topics": [
        "crop_point_set"
      ]
    },
    {
      "page": "denoise",
      "title": "denoise",
      "topics": [
        "denoise"
      ]
    },
    {
      "page": "dist_to_boundary",
      "title": "dist_to_boundary",
      "topics": [
        "dist_to_boundary"
      ]
    },
    {
      "page": "dist_to_line",
      "title": "dist_to_line",
      "topics": [
        "dist_to_line"
      ]
    },
    {
      "page": "downsample",
      "title": "downsample",
      "topics": [
        "downsample"
      ]
    },
    {
      "page": "find_elbow",
      "title": "find_elbow",
      "topics": [
        "find_elbow"
      ]
    },
    {
      "page": "Gaussian_Wd",
      "title": "Gaussian_Wd",
      "topics": [
        "Gaussian_Wd"
      ]
    },
    {
      "page": "get_kernel_matrix",
      "title": "get_kernel_matrix",
      "topics": [
        "get_kernel_matrix"
      ]
    },
    {
      "page": "get_persistence_diagrams",
      "title": "get_persistence_diagrams",
      "topics": [
        "get_persistence_diagrams"
      ]
    },
    {
      "page": "get_shape",
      "title": "get_shape",
      "topics": [
        "get_shape"
      ]
    },
    {
      "page": "get_surface_area",
      "title": "get_surface_area",
      "topics": [
        "get_surface_area"
      ]
    },
    {
      "page": "GMM_Wd",
      "title": "GMM_Wd",
      "topics": [
        "GMM_Wd"
      ]
    },
    {
      "page": "gradientWd",
      "title": "gradientWd",
      "topics": [
        "gradientWd"
      ]
    },
    {
      "page": "group_events",
      "title": "group_events",
      "topics": [
        "group_events"
      ]
    },
    {
      "page": "icp",
      "title": "icp",
      "topics": [
        "icp"
      ]
    },
    {
      "page": "idx2rowcol",
      "title": "idx2rowcol",
      "topics": [
        "idx2rowcol"
      ]
    },
    {
      "page": "img2ps",
      "title": "img2ps",
      "topics": [
        "img2ps"
      ]
    },
    {
      "page": "jrmpc",
      "title": "jrmpc",
      "topics": [
        "jrmpc"
      ]
    },
    {
      "page": "local_densities",
      "title": "local_densities",
      "topics": [
        "local_densities"
      ]
    },
    {
      "page": "locprec2cov",
      "title": "locprec2cov",
      "topics": [
        "locprec2cov"
      ]
    },
    {
      "page": "locs_from_csv",
      "title": "locs_from_csv",
      "topics": [
        "locs_from_csv"
      ]
    },
    {
      "page": "locs2ps",
      "title": "locs2ps",
      "topics": [
        "locs2ps"
      ]
    },
    {
      "page": "multiple_registration",
      "title": "multiple_registration",
      "topics": [
        "multiple_registration"
      ]
    },
    {
      "page": "point_sets_from_locs",
      "title": "point_sets_from_locs",
      "topics": [
        "point_sets_from_locs"
      ]
    },
    {
      "page": "point_sets_from_tiffs",
      "title": "point_sets_from_tiffs",
      "topics": [
        "point_sets_from_tiffs"
      ]
    },
    {
      "page": "points_from_roi",
      "title": "points_from_roi",
      "topics": [
        "points_from_roi"
      ]
    },
    {
      "page": "points2img",
      "title": "points2img",
      "topics": [
        "points2img"
      ]
    },
    {
      "page": "ps2ary",
      "title": "ps2ary",
      "topics": [
        "ps2ary"
      ]
    },
    {
      "page": "pssk",
      "title": "pssk",
      "topics": [
        "pssk"
      ]
    },
    {
      "page": "q2dr",
      "title": "Get derivative of 3D rotation matrix from quaternion",
      "topics": [
        "q2dr"
      ]
    },
    {
      "page": "q2r",
      "title": "Convert quaternion to rotation matrix http://en.wikipedia.org/wiki/Quaternions_and_spatial_rotation",
      "topics": [
        "q2r"
      ]
    },
    {
      "page": "restore_coordinates",
      "title": "restore_coordinates",
      "topics": [
        "restore_coordinates"
      ]
    },
    {
      "page": "rotx",
      "title": "rotx",
      "topics": [
        "rotx"
      ]
    },
    {
      "page": "roty",
      "title": "roty",
      "topics": [
        "roty"
      ]
    },
    {
      "page": "rotz",
      "title": "rotz",
      "topics": [
        "rotz"
      ]
    },
    {
      "page": "scale_alpha_shape",
      "title": "scale_alpha_shape",
      "topics": [
        "scale_alpha_shape"
      ]
    },
    {
      "page": "shape_features_3d",
      "title": "shape_features_3d",
      "topics": [
        "shape_features_3d"
      ]
    },
    {
      "page": "sliced_Wd",
      "title": "sliced_Wd",
      "topics": [
        "sliced_Wd"
      ]
    },
    {
      "page": "standardize_coordinates",
      "title": "standardize_coordinates",
      "topics": [
        "standardize_coordinates"
      ]
    },
    {
      "page": "tr",
      "title": "tr",
      "topics": [
        "tr"
      ]
    },
    {
      "page": "wgmmreg",
      "title": "wgmmreg",
      "topics": [
        "wgmmreg"
      ]
    }
  ],
  "_readme": "https://github.com/cran/LOMAR/raw/HEAD/README.md",
  "_rundeps": [
    "abind",
    "alphashape3d",
    "base64enc",
    "BH",
    "BiocGenerics",
    "biocmake",
    "bit",
    "bitops",
    "bslib",
    "cachem",
    "cli",
    "codetools",
    "data.table",
    "dbscan",
    "digest",
    "dir.expiry",
    "doParallel",
    "EBImage",
    "evaluate",
    "fastmap",
    "ff",
    "fftwtools",
    "filelock",
    "FNN",
    "fontawesome",
    "foreach",
    "fs",
    "generics",
    "geometry",
    "glue",
    "highr",
    "htmltools",
    "htmlwidgets",
    "iterators",
    "jpeg",
    "jquerylib",
    "jsonlite",
    "knitr",
    "lattice",
    "lifecycle",
    "linprog",
    "locfit",
    "lpSolve",
    "magic",
    "magrittr",
    "mclust",
    "memoise",
    "mime",
    "plyr",
    "png",
    "pracma",
    "proxy",
    "R6",
    "RANN",
    "rappdirs",
    "Rcpp",
    "RcppEigen",
    "RcppProgress",
    "RCurl",
    "reshape2",
    "rgl",
    "rhdf5",
    "rhdf5filters",
    "Rhdf5lib",
    "rlang",
    "rmarkdown",
    "sass",
    "stringi",
    "stringr",
    "tiff",
    "tinytex",
    "transport",
    "vctrs",
    "xfun",
    "yaml"
  ],
  "_sysdeps": [
    {
      "shlib": "libstdc++",
      "package": "libstdc++6",
      "source": "gcc",
      "version": "14.2.0-4ubuntu2~24.04.1",
      "name": "c++",
      "homepage": "http://gcc.gnu.org/",
      "description": "GNU Standard C++ Library v3"
    }
  ],
  "_score": 2,
  "_indexed": true,
  "_nocasepkg": "lomar",
  "_universes": [
    "jkh1"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "0.5.2",
      "date": "2026-06-05T07:18:29.000Z",
      "distro": "noble",
      "arch": "aarch64",
      "commit": "9a394fc2c648a631d33f9ebe6a10b015f796ae6c",
      "fileid": "602e46feff053136999b66c6608e9f5ac6bc94ada96f5a154cd80577125b4aec",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/jkh1/actions/runs/27000970171"
    },
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "0.5.2",
      "date": "2026-06-05T07:18:05.000Z",
      "distro": "noble",
      "arch": "x86_64",
      "commit": "9a394fc2c648a631d33f9ebe6a10b015f796ae6c",
      "fileid": "cac048a2ae7e198ba745a69def72e51b04d00e08e4367399d61041868f12c39c",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/jkh1/actions/runs/27000970171"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "0.5.2",
      "date": "2026-06-05T07:18:15.000Z",
      "distro": "noble",
      "arch": "aarch64",
      "commit": "9a394fc2c648a631d33f9ebe6a10b015f796ae6c",
      "fileid": "6d7bc642f156d57b93e72bb75ca7ea875a14f43e705c287e81af1469bf00ce7a",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/jkh1/actions/runs/27000970171"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "0.5.2",
      "date": "2026-06-05T07:18:00.000Z",
      "distro": "noble",
      "arch": "x86_64",
      "commit": "9a394fc2c648a631d33f9ebe6a10b015f796ae6c",
      "fileid": "669515aa16880b970dceecbee640f82018f3491d15cb1712d0cd8f925a85f6b7",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/jkh1/actions/runs/27000970171"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "0.5.2",
      "date": "2026-06-05T07:18:51.000Z",
      "arch": "aarch64",
      "commit": "9a394fc2c648a631d33f9ebe6a10b015f796ae6c",
      "fileid": "ac08f0cf6eda44397edee92d2ff423909180f4041455a8b6029a4475ccc19bab",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/jkh1/actions/runs/27000970171"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "0.5.2",
      "date": "2026-06-05T07:20:37.000Z",
      "arch": "x86_64",
      "commit": "9a394fc2c648a631d33f9ebe6a10b015f796ae6c",
      "fileid": "9b526ddf9d6f6f7918bbab8c01b5d35f9ceda87b70e243e06fbe741ac5756cd9",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/jkh1/actions/runs/27000970171"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "0.5.2",
      "date": "2026-06-05T07:21:04.000Z",
      "arch": "aarch64",
      "commit": "9a394fc2c648a631d33f9ebe6a10b015f796ae6c",
      "fileid": "bb0492b7e9aa2af4bd26e86a7603f9c5bc39ae1766b0a188b567bb986d92497d",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/jkh1/actions/runs/27000970171"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "0.5.2",
      "date": "2026-06-05T07:21:45.000Z",
      "arch": "x86_64",
      "commit": "9a394fc2c648a631d33f9ebe6a10b015f796ae6c",
      "fileid": "bf12d97c252a90051b4f1edfea7a9177b6615bc185ce7fa9d29ce04524a1836f",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/jkh1/actions/runs/27000970171"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "0.5.2",
      "date": "2026-06-05T07:18:08.000Z",
      "arch": "emscripten",
      "commit": "9a394fc2c648a631d33f9ebe6a10b015f796ae6c",
      "fileid": "9ad8388035d87148ebcb9f279297704923b9061b4258151d33ab546d407c2528",
      "status": "success",
      "buildurl": "https://github.com/r-universe/jkh1/actions/runs/27000970171"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "0.5.2",
      "date": "2026-06-05T07:16:30.000Z",
      "arch": "x86_64",
      "commit": "9a394fc2c648a631d33f9ebe6a10b015f796ae6c",
      "fileid": "6da6cf76d7a226ab252fb80f8d2b91538d1f33413ee158a4535d8c00e182e9e1",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/jkh1/actions/runs/27000970171"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "0.5.2",
      "date": "2026-06-05T07:16:26.000Z",
      "arch": "x86_64",
      "commit": "9a394fc2c648a631d33f9ebe6a10b015f796ae6c",
      "fileid": "40abd23783f6d0d570f3727bc358b5ee023abfdd12cb4226719cbbd055d3e5e9",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/jkh1/actions/runs/27000970171"
    },
    {
      "r": "4.6.0",
      "os": "win",
      "version": "0.5.2",
      "date": "2026-06-05T07:16:21.000Z",
      "arch": "x86_64",
      "commit": "9a394fc2c648a631d33f9ebe6a10b015f796ae6c",
      "fileid": "e077ebce6b8fad3333ea30b214828366be3667025fc7601d1e250724a930ec80",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/jkh1/actions/runs/27000970171"
    }
  ]
}