{ "_id": "6a102a9aacfb0bcc41c921aa", "Package": "Bioi", "Title": "Biological Image Analysis", "Version": "0.2.10", "Author": "Zachary Colburn", "Maintainer": "Zachary Colburn ", "Description": "Single linkage clustering and connected component analyses\nare often performed on biological images. 'Bioi' provides a set\nof functions for performing these tasks. This functionality is\nimplemented in several key functions that can extend to from 1\nto many dimensions. The single linkage clustering method\nimplemented here can be used on n-dimensional data sets, while\nconnected component analyses are limited to 3 or fewer\ndimensions.", "License": "GPL-3", "Encoding": "UTF-8", "RoxygenNote": "7.0.2", "VignetteBuilder": "knitr", "Config/pak/sysreqs": "libglpk-dev libxml2-dev", "Repository": "https://zcolburn.r-universe.dev", "Date/Publication": "2019-12-08 00:43:02 UTC", "RemoteUrl": "https://github.com/zcolburn/bioi", "RemoteRef": "HEAD", "RemoteSha": "31137ab2a3aac639ec725976d21a9f1a861f4920", "NeedsCompilation": "yes", "Packaged": { "Date": "2026-05-13 06:56:30 UTC", "User": "root" }, "MD5sum": "ed482f6d7007f5df316e1267a59c9651", "_user": "zcolburn", "_type": "src", "_file": "Bioi_0.2.10.tar.gz", "_fileid": "070cc22169102efcba0865df652fba8e19c3d4006a107829a64d015bb64af966", "_filesize": 119472, "_sha256": "070cc22169102efcba0865df652fba8e19c3d4006a107829a64d015bb64af966", "_created": "2026-05-13T06:56:30.000Z", "_published": "2026-05-22T10:06:18.913Z", "_distro": "noble", "_jobs": [ { "job": 77358449729, "time": 142, "config": "linux-devel-arm64", "r": "4.7.0", "check": "OK", "artifact": "6963550557" }, { "job": 77358449133, "time": 150, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "6963554357" }, { "job": 77358449794, "time": 135, "config": "linux-release-arm64", "r": "4.6.0", "check": "OK", "artifact": "6963549625" }, { "job": 77358450142, "time": 139, "config": "linux-release-x86_64", "r": "4.6.0", "check": "OK", "artifact": "6963549810" }, { "job": 77358450079, "time": 201, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "6963688875" }, { "job": 77358449930, "time": 225, "config": "macos-oldrel-x86_64", "r": "4.5.3", "check": "OK", "artifact": "6963667235" }, { "job": 77358449714, "time": 122, "config": "macos-release-arm64", "r": "4.6.0", "check": "OK", "artifact": "6963722338" }, { "job": 77358449115, "time": 223, "config": "macos-release-x86_64", "r": "4.6.0", "check": "OK", "artifact": "6963659686" }, { "job": 77358449134, "time": 180, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "6963512796" }, { "job": 77358448783, "time": 118, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7157950608" }, { "job": 77358449608, "time": 142, "config": "windows-devel", "r": "4.7.0", "check": "OK", "artifact": "6963550555" }, { "job": 77358450023, "time": 113, "config": "windows-oldrel", "r": "4.5.3", "check": "OK", "artifact": "6963543178" }, { "job": 77358449406, "time": 105, "config": "windows-release", "r": "4.6.0", "check": "OK", "artifact": "6963541060" } ], "_buildurl": "https://github.com/r-universe/zcolburn/actions/runs/25783413372", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/zcolburn/bioi", "_commit": { "id": "31137ab2a3aac639ec725976d21a9f1a861f4920", "author": "Zachary Colburn ", "committer": "Zachary Colburn ", "message": "Fix spelling mistakes\n", "time": 1575765782 }, "_maintainer": { "name": "Zachary Colburn", "email": "zcolburn@gmail.com", "login": "zcolburn", "uuid": 20046114 }, "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 3.3.0", "role": "Depends" }, { "package": "Rcpp", "role": "LinkingTo" }, { "package": "Rcpp", "version": ">= 0.12.13", "role": "Imports" }, { "package": "assertthat", "version": ">= 0.2.0", "role": "Imports" }, { "package": "dplyr", "version": ">= 0.7.4", "role": "Imports" }, { "package": "igraph", "role": "Imports" }, { "package": "knitr", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" }, { "package": "ggplot2", "role": "Suggests" }, { "package": "testthat", "version": ">= 2.0.0", "role": "Suggests" } ], "_owner": "zcolburn", "_selfowned": true, "_usedby": 0, "_updates": [], "_tags": [], "_topics": [ "biological-data-analysis", "biology", "cell", "cpp", "image-analysis", "microscopy", "cpp" ], "_stars": 0, "_contributors": [ { "user": "zcolburn", "count": 87, "uuid": 20046114 } ], "_userbio": { "uuid": 20046114, "type": "user", "name": "Zachary Colburn", "description": "My main interests are in bioinformatics, machine learning, and software development." }, "_downloads": { "count": 231, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/Bioi" }, "_devurl": "https://github.com/zcolburn/bioi", "_searchresults": 13, "_rbuild": "4.6.0", "_assets": [ "extra/Bioi.html", "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/NEWS.html", "extra/NEWS.txt", "extra/readme.html", "extra/readme.md", "manual.pdf" ], "_homeurl": "https://github.com/zcolburn/bioi", "_realowner": "zcolburn", "_cranurl": true, "_releases": [ { "version": "0.2.8", "date": "2018-01-19" }, { "version": "0.2.9", "date": "2018-01-22" }, { "version": "0.2.10", "date": "2019-12-08" } ], "_exports": [ ".perform_grouping", ".perform_partitioning", "euclidean_linker", "find_blobs", "find_min_dists", "identify_thresholded_objects" ], "_help": [ { "page": "dot-euclidean_linker_cpp", "title": "Return the group number for each localization.", "topics": [ ".euclidean_linker_cpp" ] }, { "page": "dot-find_min_dists_cpp", "title": "For all points in matrix 1, return the distance to and index of the nearest point in matrix 2.", "topics": [ ".find_min_dists_cpp" ] }, { "page": "dot-perform_grouping", "title": "Return the group number for each localization.", "topics": [ ".perform_grouping" ] }, { "page": "dot-perform_partitioning", "title": "Return the group number for each localization.", "topics": [ ".perform_partitioning" ] }, { "page": "Bioi", "title": "'Bioi' package", "topics": [ "Bioi" ] }, { "page": "euclidean_linker", "title": "Return the group number for each localization.", "topics": [ "euclidean_linker" ] }, { "page": "find_blobs", "title": "Assign all neighboring pixels the same group number.", "topics": [ "find_blobs" ] }, { "page": "find_min_dists", "title": "For all points in matrix 1, return the distance to and index of the nearest point in matrix 2.", "topics": [ "find_min_dists" ] }, { "page": "identify_thresholded_objects", "title": "Assign all neighboring pixels the same group number.", "topics": [ "identify_thresholded_objects" ] } ], "_readme": "https://github.com/zcolburn/bioi/raw/HEAD/README.md", "_rundeps": [ "assertthat", "cli", "cpp11", "dplyr", "generics", "glue", "igraph", "lattice", "lifecycle", "magrittr", "Matrix", "pillar", "pkgconfig", "R6", "Rcpp", "rlang", "tibble", "tidyselect", "utf8", "vctrs", "withr" ], "_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" } ], "_vignettes": [ { "source": "Bioi.Rmd", "filename": "Bioi.html", "title": "Bioi", "author": "Zachary Colburn", "engine": "knitr::rmarkdown", "headings": [ "Determine the minimum separation distance between two sets of points", "Single linkage clustering", "Label connected components (i.e. find contiguous blobs)" ], "created": "2017-12-31 04:42:39", "modified": "2018-01-15 04:27:52", "commits": 7 } ], "_score": 3.8129133566428557, "_indexed": true, "_nocasepkg": "bioi", "_universes": [ "zcolburn" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "0.2.10", "date": "2026-05-13T06:58:50.000Z", "distro": "noble", "arch": "aarch64", "commit": "31137ab2a3aac639ec725976d21a9f1a861f4920", "fileid": "fd1f8e4651c86e65226d0cfec9f3c34c84b20d23058cac44f89da17728ff1d6e", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/zcolburn/actions/runs/25783413372" }, { "r": "4.7.0", "os": "linux", "version": "0.2.10", "date": "2026-05-13T06:58:56.000Z", "distro": "noble", "arch": "x86_64", "commit": "31137ab2a3aac639ec725976d21a9f1a861f4920", "fileid": "72c8df7bbaa4408880ab8351c7daa0450c952584dfd287a6f4fa5f34250f6468", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/zcolburn/actions/runs/25783413372" }, { "r": "4.6.0", "os": "linux", "version": "0.2.10", "date": "2026-05-13T06:58:48.000Z", "distro": "noble", "arch": "aarch64", "commit": "31137ab2a3aac639ec725976d21a9f1a861f4920", "fileid": "6da5164f18d60c841fa04ad4732467b242dfb0514a8106fe708ca18d2d68797e", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/zcolburn/actions/runs/25783413372" }, { "r": "4.6.0", "os": "linux", "version": "0.2.10", "date": "2026-05-13T06:58:44.000Z", "distro": "noble", "arch": "x86_64", "commit": "31137ab2a3aac639ec725976d21a9f1a861f4920", "fileid": "1bab77166ad2bdb77d82f2026317784cbea4b91bfe701c577ef3e6e7bf9cc5ba", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/zcolburn/actions/runs/25783413372" }, { "r": "4.5.3", "os": "mac", "version": "0.2.10", "date": "2026-05-13T07:07:05.000Z", "arch": "aarch64", "commit": "31137ab2a3aac639ec725976d21a9f1a861f4920", "fileid": "512d36504d5b88373e51a701162531c11cf31bfe4092719d806409be8928e523", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/zcolburn/actions/runs/25783413372" }, { "r": "4.5.3", "os": "mac", "version": "0.2.10", "date": "2026-05-13T07:05:38.000Z", "arch": "x86_64", "commit": "31137ab2a3aac639ec725976d21a9f1a861f4920", "fileid": "06dc8ef7fbca4df80a785ab3f2d94313a8b6bc23b533f2a6f512eba73f7d6b29", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/zcolburn/actions/runs/25783413372" }, { "r": "4.6.0", "os": "mac", "version": "0.2.10", "date": "2026-05-13T07:08:59.000Z", "arch": "aarch64", "commit": "31137ab2a3aac639ec725976d21a9f1a861f4920", "fileid": "67d6e4bd3cb0692075c00d4272b4cb75240f88f77a65818602b7240dbbf81b73", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/zcolburn/actions/runs/25783413372" }, { "r": "4.6.0", "os": "mac", "version": "0.2.10", "date": "2026-05-13T07:05:03.000Z", "arch": "x86_64", "commit": "31137ab2a3aac639ec725976d21a9f1a861f4920", "fileid": "98aa10c7110d270ba490d10eadd960c01216f8baa4ad86b061614554ac99b83c", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/zcolburn/actions/runs/25783413372" }, { "r": "4.7.0", "os": "win", "version": "0.2.10", "date": "2026-05-13T06:58:04.000Z", "arch": "x86_64", "commit": "31137ab2a3aac639ec725976d21a9f1a861f4920", "fileid": "45f4308c1724df4de34f7c09ca02cb9fc085a8a89a6efd82d118e21f44f99d70", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/zcolburn/actions/runs/25783413372" }, { "r": "4.5.3", "os": "win", "version": "0.2.10", "date": "2026-05-13T06:57:46.000Z", "arch": "x86_64", "commit": "31137ab2a3aac639ec725976d21a9f1a861f4920", "fileid": "91847c2b69c8ed421d0f186cb3d31cf50630009080e281d39dfcb69fca681e3b", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/zcolburn/actions/runs/25783413372" }, { "r": "4.6.0", "os": "win", "version": "0.2.10", "date": "2026-05-13T06:57:43.000Z", "arch": "x86_64", "commit": "31137ab2a3aac639ec725976d21a9f1a861f4920", "fileid": "41c33aefaad868c0bfc71e124443f33e0f67729053a45cac83d7cf668ef66a05", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/zcolburn/actions/runs/25783413372" }, { "r": "4.6.0", "os": "wasm", "version": "0.2.10", "date": "2026-05-22T10:05:50.000Z", "arch": "emscripten", "commit": "31137ab2a3aac639ec725976d21a9f1a861f4920", "fileid": "60658415260eaab81eecdf57b660f5253a01b3f49578fb08b05b79e845e62fbc", "status": "success", "buildurl": "https://github.com/r-universe/zcolburn/actions/runs/25783413372" } ] }