{ "_id": "6a633efcd3420cf5dfdb9147", "Package": "womblR", "Type": "Package", "Title": "Spatiotemporal Boundary Detection Model for Areal Unit Data", "Version": "1.0.6", "Description": "Implements a spatiotemporal boundary detection model with\na dissimilarity metric for areal data with inference in a\nBayesian setting using Markov chain Monte Carlo (MCMC). The\nresponse variable can be modeled as Gaussian (no nugget),\nprobit or Tobit link and spatial correlation is introduced at\neach time point through a conditional autoregressive (CAR)\nprior. Temporal correlation is introduced through a\nhierarchical structure and can be specified as exponential or\nfirst-order autoregressive. Full details of the package can be\nfound in the accompanying vignette. Furthermore, the details of\nthe package can be found in \"Diagnosing Glaucoma Progression\nwith Visual Field Data Using a Spatiotemporal Boundary\nDetection Method\", by Berchuck et al (2019)\n.", "Date": "2025-09-26", "Authors@R": "person(\"Samuel I.\", \"Berchuck\", email = \"sib2@duke.edu\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0001-5705-3144\"))", "License": "GPL (>= 2)", "Encoding": "UTF-8", "LazyData": "true", "RoxygenNote": "7.3.2", "NeedsCompilation": "yes", "VignetteBuilder": "knitr", "Repository": "https://berchuck.r-universe.dev", "Date/Publication": "2025-09-29 17:03:52 UTC", "RemoteUrl": "https://github.com/berchuck/womblr", "RemoteRef": "HEAD", "RemoteSha": "d77aed54ba9228cfe5113da2ca3c70747d8b6a74", "Packaged": { "Date": "2026-07-24 08:08:12 UTC", "User": "root" }, "Author": "Samuel I. Berchuck [aut, cre] (ORCID:\n)", "Maintainer": "Samuel I. Berchuck ", "_user": "berchuck", "_type": "src", "_file": "womblR_1.0.6.tar.gz", "_fileid": "https://r2.ropensci.org/2e51294cfe9f22d83cd186bc7d29a4091e665f3713ad9bb2c65c431fbb917ef0", "_filesize": 892309, "_sha256": "2e51294cfe9f22d83cd186bc7d29a4091e665f3713ad9bb2c65c431fbb917ef0", "_expires": "2026-11-01T10:31:22.000Z", "_created": "2026-07-24T08:08:12.000Z", "_published": "2026-07-24T10:31:24.605Z", "_jobs": [ { "job": 89432773890, "time": 195, "config": "linux-devel-arm64", "r": "4.7.0", "check": "OK", "artifact": "8590672167" }, { "job": 89432773898, "time": 216, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "8590679689" }, { "job": 89432774002, "time": 181, "config": "linux-release-arm64", "r": "4.6.1", "check": "OK", "artifact": "8590667035" }, { "job": 89432773907, "time": 210, "config": "linux-release-x86_64", "r": "4.6.1", "check": "OK", "artifact": "8590676951" }, { "job": 89432773941, "time": 144, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "8593695391" }, { "job": 89432775213, "time": 358, "config": "macos-oldrel-x86_64", "r": "4.5.3", "check": "OK", "artifact": "8593888837" }, { "job": 89432773903, "time": 127, "config": "macos-release-arm64", "r": "4.6.1", "check": "OK", "artifact": "8593599071" }, { "job": 89432773919, "time": 301, "config": "macos-release-x86_64", "r": "4.6.1", "check": "OK", "artifact": "8593690569" }, { "job": 89431649778, "time": 362, "config": "source", "r": "4.6.1", "check": "OK", "artifact": "8590595771" }, { "job": 89432773840, "time": 168, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "8590661823" }, { "job": 89432773884, "time": 332, "config": "windows-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "8590722639" }, { "job": 89432773917, "time": 222, "config": "windows-oldrel-x86_64", "r": "4.5.3", "check": "OK", "artifact": "8590682360" }, { "job": 89432773918, "time": 234, "config": "windows-release-x86_64", "r": "4.6.1", "check": "OK", "artifact": "8590685936" } ], "_host": "GitHub-Actions", "_buildurl": "https://github.com/r-universe/berchuck/actions/runs/30077562835", "_status": "success", "_upstream": "https://github.com/berchuck/womblr", "_commit": { "id": "d77aed54ba9228cfe5113da2ca3c70747d8b6a74", "author": "berchuck ", "committer": "berchuck ", "message": "Version 1.0.6.\n", "time": 1759165432 }, "_maintainer": { "name": "Samuel I. Berchuck", "email": "sib2@duke.edu", "login": "berchuck", "description": "Assistant Professor in Duke University's Department of Biostatistics & Bioinformatics and Statistical Science", "uuid": 12814368, "orcid": "0000-0001-5705-3144" }, "_distro": "resolute", "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 3.0.2", "role": "Depends" }, { "package": "Rcpp", "role": "LinkingTo" }, { "package": "RcppArmadillo", "version": ">= 0.7.500.0.0", "role": "LinkingTo" }, { "package": "graphics", "role": "Imports" }, { "package": "grDevices", "role": "Imports" }, { "package": "msm", "version": ">= 1.0.0", "role": "Imports" }, { "package": "mvtnorm", "version": ">= 1.0-0", "role": "Imports" }, { "package": "Rcpp", "version": ">= 0.12.9", "role": "Imports" }, { "package": "stats", "role": "Imports" }, { "package": "utils", "role": "Imports" }, { "package": "coda", "role": "Suggests" }, { "package": "classInt", "role": "Suggests" }, { "package": "knitr", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" } ], "_owner": "berchuck", "_selfowned": true, "_usedby": 0, "_updates": [ { "week": "2025-40", "n": 1 } ], "_tags": [], "_stars": 1, "_contributors": [ { "user": "berchuck", "count": 16, "uuid": 12814368 }, { "user": "samraymer", "count": 2, "uuid": 30486 } ], "_userbio": { "uuid": 12814368, "type": "user", "name": "Samuel Berchuck", "followers": 10, "description": "Assistant Professor in Duke University's Department of Biostatistics & Bioinformatics and Statistical Science" }, "_downloads": { "count": 256, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/womblR" }, "_devurl": "https://github.com/berchuck/womblr", "_searchresults": 36, "_topics": [ "openblas", "cpp" ], "_rbuild": "4.6.1", "_assets": [ "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", "extra/womblR.html", "manual.pdf" ], "_homeurl": "https://github.com/berchuck/womblr", "_realowner": "berchuck", "_cranurl": true, "_releases": [ { "version": "1.0.0", "date": "2017-06-17" }, { "version": "1.0.1", "date": "2017-07-17" }, { "version": "1.0.2", "date": "2017-09-12" }, { "version": "1.0.3", "date": "2018-06-20" }, { "version": "1.0.4", "date": "2018-12-04" }, { "version": "1.0.5", "date": "2022-09-05" }, { "version": "1.0.6", "date": "2025-09-26" } ], "_exports": [ "diagnostics", "is.PosteriorAdj", "is.STBDwDM", "PlotAdjacency", "PlotSensitivity", "PlotVfTimeSeries", "PosteriorAdj", "STBDwDM" ], "_datasets": [ { "name": "GarwayHeath", "title": "Garway-Heath angles for the HFA-II", "object": "GarwayHeath", "class": [ "numeric" ], "fields": [], "table": false, "tojson": true }, { "name": "HFAII_Queen", "title": "HFAII Queen Adjacency Matrix", "object": "HFAII_Queen", "class": [ "matrix", "array" ], "fields": [], "rows": 54, "table": true, "tojson": true }, { "name": "HFAII_QueenHF", "title": "HFAII Queen Hemisphere Adjacency Matrix", "object": "HFAII_QueenHF", "class": [ "matrix", "array" ], "fields": [], "rows": 54, "table": true, "tojson": true }, { "name": "HFAII_Rook", "title": "HFAII Rook Adjacency Matrix", "object": "HFAII_Rook", "class": [ "matrix", "array" ], "fields": [], "rows": 54, "table": true, "tojson": true }, { "name": "VFSeries", "title": "Visual field series for one patient.", "object": "VFSeries", "class": [ "data.frame" ], "fields": [ "Visit", "DLS", "Time", "Location" ], "rows": 486, "table": true, "tojson": true } ], "_help": [ { "page": "diagnostics", "title": "diagnostics", "topics": [ "diagnostics" ] }, { "page": "GarwayHeath", "title": "Garway-Heath angles for the HFA-II", "topics": [ "GarwayHeath" ] }, { "page": "HFAII_Queen", "title": "HFAII Queen Adjacency Matrix", "topics": [ "HFAII_Queen" ] }, { "page": "HFAII_QueenHF", "title": "HFAII Queen Hemisphere Adjacency Matrix", "topics": [ "HFAII_QueenHF" ] }, { "page": "HFAII_Rook", "title": "HFAII Rook Adjacency Matrix", "topics": [ "HFAII_Rook" ] }, { "page": "is.PosteriorAdj", "title": "is.PosteriorAdj", "topics": [ "is.PosteriorAdj" ] }, { "page": "is.STBDwDM", "title": "is.STBDwDM", "topics": [ "is.STBDwDM" ] }, { "page": "PlotAdjacency", "title": "PlotAdjacency", "topics": [ "PlotAdjacency" ] }, { "page": "PlotSensitivity", "title": "PlotSensitivity", "topics": [ "PlotSensitivity" ] }, { "page": "PlotVfTimeSeries", "title": "PlotVfTimeSeries", "topics": [ "PlotVfTimeSeries" ] }, { "page": "PosteriorAdj", "title": "PosteriorAdj", "topics": [ "PosteriorAdj" ] }, { "page": "predict.STBDwDM", "title": "predict.STBDwDM", "topics": [ "predict.STBDwDM" ] }, { "page": "STBDwDM", "title": "MCMC sampler for spatiotemporal boundary detection with dissimilarity metric.", "topics": [ "STBDwDM" ] }, { "page": "VFSeries", "title": "Visual field series for one patient.", "topics": [ "VFSeries" ] }, { "page": "womblR", "title": "womblR", "topics": [ "womblR-package", "womblR" ] } ], "_readme": "https://github.com/berchuck/womblr/raw/HEAD/README.md", "_rundeps": [ "cli", "expm", "generics", "glue", "lattice", "lifecycle", "magrittr", "Matrix", "msm", "mvtnorm", "pillar", "pkgconfig", "Rcpp", "RcppArmadillo", "rlang", "survival", "tibble", "utf8", "vctrs" ], "_sysdeps": [ { "shlib": "liblapack", "package": "libopenblas0-pthread", "source": "openblas", "version": "0.3.32+ds-5", "name": "openblas", "homepage": "https://www.openblas.net/", "description": "Optimized BLAS (linear algebra) library (shared lib, pthread)" }, { "shlib": "libblas", "package": "libopenblas0-pthread", "source": "openblas", "version": "0.3.32+ds-5", "name": "openblas", "homepage": "https://www.openblas.net/", "description": "Optimized BLAS (linear algebra) library (shared lib, pthread)" }, { "shlib": "libstdc++", "package": "libstdc++6", "source": "gcc", "version": "16-20260322-1ubuntu1", "name": "c++", "homepage": "http://gcc.gnu.org/", "description": "GNU Standard C++ Library v3" } ], "_vignettes": [ { "source": "womblR-example.Rmd", "filename": "womblR-example.html", "title": "Introduction to using R package: womblR", "author": "Samuel I. Berchuck", "engine": "knitr::rmarkdown", "headings": [ "Use of womblR", "Format data for STBDwDM", "Adjacency matrix and dissimilarity metric", "MCMC Characteristics", "Spatiotemporal boundary dection with dissimilarity metric model", "Assessing model convergence", "Post model fit analysis", "Compute diagnostics", "Future prediction" ], "created": "2017-06-15 13:40:01", "modified": "2018-12-04 19:17:20", "commits": 5 } ], "_score": 4.2552725051033065, "_indexed": true, "_nocasepkg": "womblr", "_universes": [ "berchuck" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.0.6", "date": "2026-07-24T08:11:23.000Z", "distro": "resolute", "arch": "aarch64", "commit": "d77aed54ba9228cfe5113da2ca3c70747d8b6a74", "fileid": "https://r2.ropensci.org/9c55e4645b268b3c4f54e7dfc6775037a96292ef3f77bcef99e9148d4c10ee16", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/berchuck/actions/runs/30077562835" }, { "r": "4.7.0", "os": "linux", "version": "1.0.6", "date": "2026-07-24T08:11:35.000Z", "distro": "resolute", "arch": "x86_64", "commit": "d77aed54ba9228cfe5113da2ca3c70747d8b6a74", "fileid": "https://r2.ropensci.org/2333adc99d3ca46218c406f32ffbafd081db5ff234661fc81e2602634e92bfaa", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/berchuck/actions/runs/30077562835" }, { "r": "4.6.1", "os": "linux", "version": "1.0.6", "date": "2026-07-24T08:11:13.000Z", "distro": "resolute", "arch": "aarch64", "commit": "d77aed54ba9228cfe5113da2ca3c70747d8b6a74", "fileid": "https://r2.ropensci.org/03e0101905b5a4b6f2fc5447ef2fb0b0f94af0ba9552b10c6ec583ea106d11d9", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/berchuck/actions/runs/30077562835" }, { "r": "4.6.1", "os": "linux", "version": "1.0.6", "date": "2026-07-24T08:11:32.000Z", "distro": "resolute", "arch": "x86_64", "commit": "d77aed54ba9228cfe5113da2ca3c70747d8b6a74", "fileid": "https://r2.ropensci.org/010ac99dcdb344a02c90ae17a7b1d1044f17d6ad2e1fd082c517bf06e6492049", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/berchuck/actions/runs/30077562835" }, { "r": "4.5.3", "os": "mac", "version": "1.0.6", "date": "2026-07-24T10:21:21.000Z", "arch": "aarch64", "commit": "d77aed54ba9228cfe5113da2ca3c70747d8b6a74", "fileid": "https://r2.ropensci.org/92df181f1bb67af43f735b70999070ed4971fe76da653225dfbcb0e311193ec1", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/berchuck/actions/runs/30077562835" }, { "r": "4.5.3", "os": "mac", "version": "1.0.6", "date": "2026-07-24T10:27:57.000Z", "arch": "x86_64", "commit": "d77aed54ba9228cfe5113da2ca3c70747d8b6a74", "fileid": "https://r2.ropensci.org/88d6f762b46712795d92c7ec39253582784dbcd79c414dfb9e7b28f0dee9d7ee", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/berchuck/actions/runs/30077562835" }, { "r": "4.6.1", "os": "mac", "version": "1.0.6", "date": "2026-07-24T10:17:19.000Z", "arch": "aarch64", "commit": "d77aed54ba9228cfe5113da2ca3c70747d8b6a74", "fileid": "https://r2.ropensci.org/a51c50f3988a0caa5121d165a05829f75d53353ff1f257f3280c6b844b389ec9", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/berchuck/actions/runs/30077562835" }, { "r": "4.6.1", "os": "mac", "version": "1.0.6", "date": "2026-07-24T10:19:46.000Z", "arch": "x86_64", "commit": "d77aed54ba9228cfe5113da2ca3c70747d8b6a74", "fileid": "https://r2.ropensci.org/fd86c19d64d7b77b41671c5bbc4ee44709fd03dd148bf226383c469eaf102bde", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/berchuck/actions/runs/30077562835" }, { "r": "4.6.0", "os": "wasm", "version": "1.0.6", "date": "2026-07-24T08:11:39.000Z", "arch": "emscripten", "commit": "d77aed54ba9228cfe5113da2ca3c70747d8b6a74", "fileid": "https://r2.ropensci.org/002a1b45d6cb22f83c80fcf514652a0f1d520939a7fd33a9cdfd6b7c138077d0", "status": "success", "buildurl": "https://github.com/r-universe/berchuck/actions/runs/30077562835" }, { "r": "4.7.0", "os": "win", "version": "1.0.6", "date": "2026-07-24T08:11:44.000Z", "arch": "x86_64", "commit": "d77aed54ba9228cfe5113da2ca3c70747d8b6a74", "fileid": "https://r2.ropensci.org/fcd39eef6c8205301ed9ea5a67ebcb9d6f2d96666adf5db802fb80f3871b8cb4", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/berchuck/actions/runs/30077562835" }, { "r": "4.5.3", "os": "win", "version": "1.0.6", "date": "2026-07-24T08:10:47.000Z", "arch": "x86_64", "commit": "d77aed54ba9228cfe5113da2ca3c70747d8b6a74", "fileid": "https://r2.ropensci.org/b1dc526080ed2709d5e4f14df4828726a5f8ed65bb2796367cc8a8661756c123", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/berchuck/actions/runs/30077562835" }, { "r": "4.6.1", "os": "win", "version": "1.0.6", "date": "2026-07-24T08:10:44.000Z", "arch": "x86_64", "commit": "d77aed54ba9228cfe5113da2ca3c70747d8b6a74", "fileid": "https://r2.ropensci.org/1c4d1adf4a74881a691903cf26ed51c515fdd7b9b914f43b2487a861eebbf05f", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/berchuck/actions/runs/30077562835" } ] }