{ "_id": "6a16986aacfb0bcc41d7ce41", "Package": "DatabionicSwarm", "Type": "Package", "License": "GPL-3", "Title": "Swarm Intelligence for Self-Organized Clustering", "Version": "1.3.0", "Date": "2023-10-30", "Authors@R": "c(person(\"Michael\", \"Thrun\", email= \"m.thrun@gmx.net\",role=c(\"aut\",\"cre\",\"cph\"), comment = c(ORCID = \"0000-0001-9542-5543\")),person(\"Quirin\", \"Stier\",role=c(\"aut\",\"rev\")))", "Maintainer": "Michael Thrun ", "Description": "Algorithms implementing populations of agents that\ninteract with one another and sense their environment may\nexhibit emergent behavior such as self-organization and swarm\nintelligence. Here, a swarm system called Databionic swarm\n(DBS) is introduced which was published in Thrun, M.C., Ultsch\nA.: \"Swarm Intelligence for Self-Organized Clustering\" (2020),\nArtificial Intelligence, .\nDBS is able to adapt itself to structures of high-dimensional\ndata such as natural clusters characterized by distance and/or\ndensity based structures in the data space. The first module is\nthe parameter-free projection method called Pswarm (Pswarm()),\nwhich exploits the concepts of self-organization and emergence,\ngame theory, swarm intelligence and symmetry considerations.\nThe second module is the parameter-free high-dimensional data\nvisualization technique, which generates projected points on\nthe topographic map with hypsometric tints defined by the\ngeneralized U-matrix (GeneratePswarmVisualization()). The third\nmodule is the clustering method itself with non-critical\nparameters (DBSclustering()). Clustering can be verified by the\nvisualization and vice versa. The term DBS refers to the method\nas a whole. It enables even a non-professional in the field of\ndata mining to apply its algorithms for visualization and/or\nclustering to data sets with completely different structures\ndrawn from diverse research fields. The comparison to common\nprojection methods can be found in the book of Thrun, M.C.:\n\"Projection Based Clustering through Self-Organization and\nSwarm Intelligence\" (2018) .", "NeedsCompilation": "yes", "SystemRequirements": "GNU make, pandoc (>=1.12.3, needed for vignettes)", "LazyLoad": "yes", "LazyData": "TRUE", "URL": "https://www.deepbionics.org/", "Encoding": "UTF-8", "VignetteBuilder": "knitr", "BugReports": "https://github.com/Mthrun/DatabionicSwarm/issues", "Config/pak/sysreqs": "make", "Repository": "https://mthrun.r-universe.dev", "Date/Publication": "2023-10-30 12:31:37 UTC", "RemoteUrl": "https://github.com/mthrun/databionicswarm", "RemoteRef": "HEAD", "RemoteSha": "442e97529e88b51ced34360722a23ede36a21e3e", "Packaged": { "Date": "2026-05-27 06:56:54 UTC", "User": "root" }, "Author": "Michael Thrun [aut, cre, cph] (ORCID:\n),\nQuirin Stier [aut, rev]", "MD5sum": "732e12521d0a61c5b60b25c72ecbe966", "_user": "mthrun", "_type": "src", "_file": "DatabionicSwarm_1.3.0.tar.gz", "_fileid": "fc755792c10ef3075d00152563501336fa6bfd1a1f6aa9cbbf763464f68d1709", "_filesize": 2704173, "_sha256": "fc755792c10ef3075d00152563501336fa6bfd1a1f6aa9cbbf763464f68d1709", "_created": "2026-05-27T06:56:54.000Z", "_published": "2026-05-27T07:08:26.883Z", "_distro": "noble", "_jobs": [ { "job": 78024169892, "time": 223, "config": "linux-devel-arm64", "r": "4.7.0", "check": "ERROR", "artifact": "7233932156" }, { "job": 78024169903, "time": 206, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "ERROR", "artifact": "7233927312" }, { "job": 78024170443, "time": 240, "config": "linux-release-arm64", "r": "4.6.0", "check": "ERROR", "artifact": "7233937229" }, { "job": 78024169898, "time": 223, "config": "linux-release-x86_64", "r": "4.6.0", "check": "ERROR", "artifact": "7233932402" }, { "job": 78024170321, "time": 198, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "ERROR", "artifact": "7233944756" }, { "job": 78024169881, "time": 604, "config": "macos-oldrel-x86_64", "r": "4.5.3", "check": "ERROR", "artifact": "7234040126" }, { "job": 78024169865, "time": 165, "config": "macos-release-arm64", "r": "4.6.0", "check": "ERROR", "artifact": "7233934478" }, { "job": 78024169866, "time": 295, "config": "macos-release-x86_64", "r": "4.6.0", "check": "ERROR", "artifact": "7233953358" }, { "job": 78023432878, "time": 339, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "7233870218" }, { "job": 78024169917, "time": 182, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7233920172" }, { "job": 78024169890, "time": 203, "config": "windows-devel", "r": "4.7.0", "check": "ERROR", "artifact": "7233926141" }, { "job": 78024169860, "time": 185, "config": "windows-oldrel", "r": "4.5.3", "check": "ERROR", "artifact": "7233920701" }, { "job": 78024169870, "time": 280, "config": "windows-release", "r": "4.6.0", "check": "ERROR", "artifact": "7233949188" } ], "_buildurl": "https://github.com/r-universe/mthrun/actions/runs/26495734794", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/mthrun/databionicswarm", "_commit": { "id": "442e97529e88b51ced34360722a23ede36a21e3e", "author": "Mthrun ", "committer": "Mthrun ", "message": "bugfix RelativeDifference, Optional parameter\n", "time": 1698669097 }, "_maintainer": { "name": "Michael Thrun", "email": "m.thrun@gmx.net", "login": "mthrun", "description": "Dr. habil. Michael C. Thrun, promovierte 2017 an der Philipps-Universität Marburg unter Prof. Dr. habil. Alfred Ultsch und habiltierte 2022 im Fach Informatik.", "uuid": 15046412, "orcid": "0000-0001-9542-5543" }, "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 3.0", "role": "Depends" }, { "package": "Rcpp", "role": "LinkingTo" }, { "package": "RcppArmadillo", "role": "LinkingTo" }, { "package": "RcppParallel", "role": "LinkingTo" }, { "package": "Rcpp", "version": ">= 1.0.8", "role": "Imports" }, { "package": "RcppParallel", "version": ">= 5.1.4", "role": "Imports" }, { "package": "deldir", "role": "Imports" }, { "package": "GeneralizedUmatrix", "role": "Imports" }, { "package": "DataVisualizations", "role": "Suggests" }, { "package": "knitr", "version": ">= 1.12", "role": "Suggests" }, { "package": "rmarkdown", "version": ">= 0.9", "role": "Suggests" }, { "package": "plotrix", "role": "Suggests" }, { "package": "geometry", "role": "Suggests" }, { "package": "sp", "role": "Suggests" }, { "package": "spdep", "role": "Suggests" }, { "package": "parallel", "role": "Suggests" }, { "package": "rgl", "role": "Suggests" }, { "package": "png", "role": "Suggests" }, { "package": "ProjectionBasedClustering", "role": "Suggests" }, { "package": "parallelDist", "role": "Suggests" }, { "package": "pracma", "role": "Suggests" }, { "package": "dendextend", "role": "Suggests" } ], "_owner": "mthrun", "_selfowned": true, "_usedby": 2, "_updates": [], "_tags": [], "_stars": 12, "_contributors": [ { "user": "mthrun", "count": 90, "uuid": 15046412 }, { "user": "asbahtoqeer", "count": 6, "uuid": 31985463 } ], "_userbio": { "uuid": 15046412, "type": "user", "name": "Mthrun", "description": "Dr. habil. Michael C. Thrun, promovierte 2017 an der Philipps-Universität Marburg unter Prof. Dr. habil. Alfred Ultsch und habiltierte 2022 im Fach Informatik." }, "_downloads": { "count": 331, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/DatabionicSwarm" }, "_mentions": 3, "_devurl": "https://github.com/mthrun/databionicswarm", "_searchresults": 28, "_topics": [ "openblas", "cpp" ], "_rbuild": "4.6.0", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/DatabionicSwarm.html", "extra/readme.html", "extra/readme.md", "manual.pdf" ], "_homeurl": "https://github.com/mthrun/databionicswarm", "_realowner": "mthrun", "_cranurl": true, "_releases": [ { "version": "0.9.7", "date": "2017-08-20" }, { "version": "0.9.8", "date": "2017-09-28" }, { "version": "1.0.0", "date": "2018-01-31" }, { "version": "1.0.1", "date": "2018-03-07" }, { "version": "1.0.3", "date": "2018-05-06" }, { "version": "1.1.0", "date": "2018-07-03" }, { "version": "1.1.1", "date": "2019-01-27" }, { "version": "1.1.2", "date": "2019-12-11" }, { "version": "1.1.3", "date": "2020-02-03" }, { "version": "1.1.5", "date": "2021-01-12" }, { "version": "1.1.6", "date": "2022-11-29" }, { "version": "1.2.0", "date": "2023-05-30" }, { "version": "1.2.1", "date": "2023-10-13" }, { "version": "2.0.0", "date": "2024-06-20" } ], "_exports": [ "DBSclustering", "Delaunay4Points", "DijkstraSSSP", "GeneratePswarmVisualization", "ProjectedPoints2Grid", "Pswarm", "RelativeDifference", "sESOM4BMUs", "setGridSize", "ShortestGraphPathsC", "UniquePoints" ], "_datasets": [ { "name": "DefaultColorSequence", "title": "Default color sequence for plots", "object": "DefaultColorSequence", "class": [ "character" ], "fields": [], "table": false, "tojson": true }, { "name": "Hepta", "title": "Hepta is part of the Fundamental Clustering Problem Suit (FCPS) [Thrun/Ultsch, 2020].", "object": "Hepta", "class": [ "list" ], "fields": [], "table": false, "tojson": true }, { "name": "Lsun3D", "title": "Lsun3D is part of the Fundamental Clustering Problem Suit (FCPS) [Thrun/Ultsch, 2020].", "object": "Lsun3D", "class": [ "list" ], "fields": [], "table": false, "tojson": true } ], "_help": [ { "page": "DatabionicSwarm-package", "title": "Swarm Intelligence for Self-Organized Clustering", "topics": [ "DatabionicSwarm-package", "DatabionicSwarm" ] }, { "page": "DBSclustering", "title": "Databonic swarm clustering (DBS)", "concept": [ "Databonic swarm", "cluster analysis" ], "topics": [ "DBSclustering" ] }, { "page": "DefaultColorSequence", "title": "Default color sequence for plots", "topics": [ "DefaultColorSequence" ] }, { "page": "Delaunay4Points", "title": "Adjacency matrix of the delaunay graph for BestMatches of Points", "topics": [ "Delaunay4Points" ] }, { "page": "DelaunayClassificationError", "title": "Delaunay Classification Error (DCE)", "topics": [ "DelaunayClassificationError" ] }, { "page": "Delta3DWeightsC", "title": "Intern function", "topics": [ "Delta3DWeightsC" ] }, { "page": "DijkstraSSSP", "title": "Internal function: Dijkstra SSSP", "topics": [ "DijkstraSSSP" ] }, { "page": "findPossiblePositionsCsingle", "title": "Intern function, do not use yourself", "topics": [ "findPossiblePositionsCsingle" ] }, { "page": "GeneratePswarmVisualization", "title": "Generates the Umatrix for Pswarm algorithm", "concept": [ "Databionic swarm", "generalized Umatrix", "cluster analysis" ], "topics": [ "GeneratePswarmVisualization" ] }, { "page": "getCartesianCoordinates", "title": "Intern function: Transformation of Databot indizes to coordinates", "topics": [ "getCartesianCoordinates" ] }, { "page": "getUmatrix4Projection", "title": "depricated! see GeneralizedUmatrix() Generalisierte U-Matrix fuer Projektionsverfahren", "topics": [ "getUmatrix4Projection" ] }, { "page": "Hepta", "title": "Hepta is part of the Fundamental Clustering Problem Suit (FCPS) [Thrun/Ultsch, 2020].", "topics": [ "Hepta" ] }, { "page": "Lsun3D", "title": "Lsun3D is part of the Fundamental Clustering Problem Suit (FCPS) [Thrun/Ultsch, 2020].", "topics": [ "Lsun3D" ] }, { "page": "plotSwarm", "title": "Intern function for plotting during the Pswarm annealing process", "topics": [ "plotSwarm" ] }, { "page": "ProjectedPoints2Grid", "title": "Transforms ProjectedPoints to a grid", "topics": [ "ProjectedPoints2Grid" ] }, { "page": "Pswarm", "title": "A Swarm of Databots based on polar coordinates (Polar Swarm).", "concept": [ "Databionic swarm", "Polar Swarm", "swarm intelligence", "game theory", "cluster analysis", "dimensionality reduction" ], "topics": [ "Pswarm", "pswarm", "pswarmCpp" ] }, { "page": "PswarmCurrentRadiusC2botsPositive", "title": "intern function, do not use yourself", "topics": [ "PswarmCurrentRadiusC2botsPositive" ] }, { "page": "rDistanceToroidCsingle", "title": "Intern function for 'Pswarm'", "topics": [ "rDistanceToroidCsingle" ] }, { "page": "RelativeDifference", "title": "Relative Difference", "topics": [ "RelativeDifference" ] }, { "page": "sESOM4BMUs", "title": "Intern function: Simplified Emergent Self-Organizing Map", "topics": [ "sESOM4BMUs" ] }, { "page": "setdiffMatrix", "title": "setdiffMatrix shortens Matrix2Curt by those rows that are in both matrices.", "topics": [ "setdiffMatrix" ] }, { "page": "setGridSize", "title": "Sets the grid size for the Pswarm algorithm", "topics": [ "setGridSize" ] }, { "page": "setPolarGrid", "title": "Intern function: Sets the polar grid", "topics": [ "setPolarGrid" ] }, { "page": "setRmin", "title": "Intern function: Estimates the minimal radius for the Databot scent", "topics": [ "setRmin" ] }, { "page": "ShortestGraphPathsC", "title": "Shortest GraphPaths = geodesic distances", "topics": [ "ShortestGraphPathsC" ] }, { "page": "trainstepC", "title": "Internal function for sESOM", "topics": [ "trainstepC" ] }, { "page": "UniquePoints", "title": "Unique Points", "concept": [ "data points" ], "topics": [ "UniquePoints" ] } ], "_readme": "https://github.com/mthrun/databionicswarm/raw/HEAD/README.md", "_rundeps": [ "cli", "cpp11", "deldir", "farver", "GeneralizedUmatrix", "ggplot2", "glue", "gtable", "isoband", "labeling", "lifecycle", "R6", "RColorBrewer", "Rcpp", "RcppArmadillo", "RcppParallel", "rlang", "S7", "scales", "vctrs", "viridisLite", "withr" ], "_sysdeps": [ { "shlib": "liblapack", "package": "libopenblas0-pthread", "source": "openblas", "version": "0.3.26+ds-1ubuntu0.1", "name": "openblas", "homepage": "https://www.openblas.net/", "description": "Optimized BLAS (linear algebra) library (shared lib, pthread)" }, { "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": "DatabionicSwarm.Rmd", "filename": "DatabionicSwarm.html", "title": "Short Intro to the Databionic Swarm (DBS)", "author": "Michael C. Thrun", "engine": "knitr::rmarkdown", "headings": [ "Introduction", "First Example: Automatic approach", "First Module: Projection of high-dimensional Data", "Second Module: Generalized Umatrix", "Third Module: Automatic Clustering", "First Module: Projection of High-dimensional Data", "Third Module: Interactive Clustering", "Generating the Shape of an Island out of the Topograpahic Map", "Manually Improving the Clustering Using the Topograpahic Map", "Quality Measures of Projection and Clustering", "Gabriel Classification Error", "Clustering Accuracy" ], "created": "2018-06-15 07:46:26", "modified": "2023-10-30 12:02:34", "commits": 9 } ], "_score": 6.48058178682917, "_indexed": true, "_nocasepkg": "databionicswarm", "_universes": [ "mthrun" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.3.0", "date": "2026-05-27T07:00:25.000Z", "distro": "noble", "arch": "aarch64", "commit": "442e97529e88b51ced34360722a23ede36a21e3e", "fileid": "3a6ed769cc558d707950d1d393135819270119c7e2c57108eee44a5bc5882d54", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/mthrun/actions/runs/26495734794" }, { "r": "4.7.0", "os": "linux", "version": "1.3.0", "date": "2026-05-27T07:00:15.000Z", "distro": "noble", "arch": "x86_64", "commit": "442e97529e88b51ced34360722a23ede36a21e3e", "fileid": "bff3684f6b677da28fcdc4888a8693b61d7123880f909d2d658285df1c69fcd7", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/mthrun/actions/runs/26495734794" }, { "r": "4.6.0", "os": "linux", "version": "1.3.0", "date": "2026-05-27T07:00:38.000Z", "distro": "noble", "arch": "aarch64", "commit": "442e97529e88b51ced34360722a23ede36a21e3e", "fileid": "965562c36e4ef8ab8fca66c88c5a7ddec8980c725274d5a4791f0da57f332d55", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/mthrun/actions/runs/26495734794" }, { "r": "4.6.0", "os": "linux", "version": "1.3.0", "date": "2026-05-27T07:00:25.000Z", "distro": "noble", "arch": "x86_64", "commit": "442e97529e88b51ced34360722a23ede36a21e3e", "fileid": "3e9acf038ff1589cdbf7ebdfff0b4b09e00f84637ccb0b3623df08842ac5db7d", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/mthrun/actions/runs/26495734794" }, { "r": "4.5.3", "os": "mac", "version": "1.3.0", "date": "2026-05-27T07:01:28.000Z", "arch": "aarch64", "commit": "442e97529e88b51ced34360722a23ede36a21e3e", "fileid": "81cdaa29dad9033bd20f44412b426255e6301ad0b913ec91bc4af3f6f01ec287", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/mthrun/actions/runs/26495734794" }, { "r": "4.5.3", "os": "mac", "version": "1.3.0", "date": "2026-05-27T07:04:25.000Z", "arch": "x86_64", "commit": "442e97529e88b51ced34360722a23ede36a21e3e", "fileid": "f70a12e863dcbb1a5045f84a18c7761b4f33ac2addc6404619a712055fc05a75", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/mthrun/actions/runs/26495734794" }, { "r": "4.6.0", "os": "mac", "version": "1.3.0", "date": "2026-05-27T07:00:57.000Z", "arch": "aarch64", "commit": "442e97529e88b51ced34360722a23ede36a21e3e", "fileid": "986cf772d87de5b10ad0ee6c941998fbda711d00fd1811e907f022c57527be7f", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/mthrun/actions/runs/26495734794" }, { "r": "4.6.0", "os": "mac", "version": "1.3.0", "date": "2026-05-27T07:01:06.000Z", "arch": "x86_64", "commit": "442e97529e88b51ced34360722a23ede36a21e3e", "fileid": "4331ed7a9afd8fcdb4598d64e733a679e37aa4aa39ab6038cc2e6c938a542c76", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/mthrun/actions/runs/26495734794" }, { "r": "4.6.0", "os": "wasm", "version": "1.3.0", "date": "2026-05-27T07:00:26.000Z", "arch": "emscripten", "commit": "442e97529e88b51ced34360722a23ede36a21e3e", "fileid": "851972cbc7b91b861ec4accff425f5cd5c7ed6ea21dd9e0df771f838e664e8a9", "status": "success", "buildurl": "https://github.com/r-universe/mthrun/actions/runs/26495734794" }, { "r": "4.7.0", "os": "win", "version": "1.3.0", "date": "2026-05-27T06:59:15.000Z", "arch": "x86_64", "commit": "442e97529e88b51ced34360722a23ede36a21e3e", "fileid": "cb4b29d03d891b24d6b7eb6e1d290516f4d40ba91abf11ab714e3836447aec6e", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/mthrun/actions/runs/26495734794" }, { "r": "4.5.3", "os": "win", "version": "1.3.0", "date": "2026-05-27T06:59:08.000Z", "arch": "x86_64", "commit": "442e97529e88b51ced34360722a23ede36a21e3e", "fileid": "17f207eb0711136bab37efccaa5ea217d560ddacb8a651ab01fd3c104d78f4e5", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/mthrun/actions/runs/26495734794" }, { "r": "4.6.0", "os": "win", "version": "1.3.0", "date": "2026-05-27T06:59:35.000Z", "arch": "x86_64", "commit": "442e97529e88b51ced34360722a23ede36a21e3e", "fileid": "7370fabe734394528a07c46293425e629d6cf8ffff2801dab9746cb0a334e63f", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/mthrun/actions/runs/26495734794" } ] }