{ "_id": "6a2d0ef73efcd9bda42f0312", "Package": "GMCM", "Type": "Package", "Title": "Fast Estimation of Gaussian Mixture Copula Models", "Description": "Unsupervised Clustering and Meta-analysis using Gaussian\nMixture Copula Models.", "Version": "1.4", "Authors@R": "c(\nperson(given = c(\"Anders\", \"Ellern\"),\nfamily = \"Bilgrau\",\nrole = c(\"aut\", \"cre\", \"cph\"),\nemail = \"anders.ellern.bilgrau@gmail.com\",\ncomment = c(ORCID = \"0000-0001-9875-2902\")),\nperson(given = c(\"Poul\", \"Svante\"),\nfamily = \"Eriksen\",\nrole = c(\"ths\", \"ctb\"),\ncomment = c(ORCID = \"0000-0001-9192-1814\")),\nperson(given = \"Martin\",\nfamily = \"Boegsted\",\nrole = c(\"ths\", \"ctb\"))\n)", "Maintainer": "Anders Ellern Bilgrau ", "URL": "https://github.com/AEBilgrau/GMCM", "BugReports": "https://github.com/AEBilgrau/GMCM/issues", "License": "GPL (>= 2)", "KeepSource": "yes", "VignetteBuilder": "knitr", "RoxygenNote": "6.1.1", "Encoding": "UTF-8", "NeedsCompilation": "yes", "Packaged": { "Date": "2026-06-13 07:59:23 UTC", "User": "root" }, "Author": "Anders Ellern Bilgrau [aut, cre, cph]\n(), Poul Svante Eriksen\n[ths, ctb] (), Martin\nBoegsted [ths, ctb]", "Repository": "https://cran.r-universe.dev", "Date/Publication": "2019-11-05 21:10:02 UTC", "RemoteUrl": "https://github.com/cran/GMCM", "RemoteRef": "HEAD", "RemoteSha": "4554adad96567e342a026daa24dc0e87ea59b55d", "MD5sum": "598a800fb978354b362b3cbf7f693cc1", "_user": "cran", "_type": "src", "_file": "GMCM_1.4.tar.gz", "_fileid": "77915163781e960acd79773280c6fb19e6f63828321b80ba9586bb4516eb3e36", "_filesize": 8908259, "_sha256": "77915163781e960acd79773280c6fb19e6f63828321b80ba9586bb4516eb3e36", "_created": "2026-06-13T07:59:23.000Z", "_published": "2026-06-13T08:04:06.973Z", "_distro": "noble", "_jobs": [ { "job": 81174792498, "time": 215, "config": "linux-devel-arm64", "r": "4.7.0", "check": "NOTE", "artifact": "7608897078" }, { "job": 81174792502, "time": 179, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "NOTE", "artifact": "7608892846" }, { "job": 81174792574, "time": 199, "config": "linux-release-arm64", "r": "4.6.0", "check": "NOTE", "artifact": "7608895674" }, { "job": 81174792503, "time": 192, "config": "linux-release-x86_64", "r": "4.6.0", "check": "NOTE", "artifact": "7608894355" }, { "job": 81174441669, "time": 325, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "7608869185" }, { "job": 81174792478, "time": 137, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7608888194" } ], "_buildurl": "https://github.com/r-universe/cran/actions/runs/27460923656", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/cran/GMCM", "_commit": { "id": "4554adad96567e342a026daa24dc0e87ea59b55d", "author": "Anders Ellern Bilgrau ", "committer": "cran-robot ", "message": "version 1.4\n", "time": 1572988202 }, "_maintainer": { "name": "Anders Ellern Bilgrau", "email": "anders.ellern.bilgrau@gmail.com", "login": "aebilgrau", "description": "", "uuid": 6087024, "orcid": "0000-0001-9875-2902" }, "_registered": true, "_dependencies": [ { "package": "Rcpp", "role": "LinkingTo" }, { "package": "RcppArmadillo", "role": "LinkingTo" }, { "package": "Rcpp", "version": ">= 0.10.6", "role": "Imports" }, { "package": "ellipse", "role": "Imports" }, { "package": "idr", "role": "Suggests" }, { "package": "Hmisc", "role": "Suggests" }, { "package": "RColorBrewer", "role": "Suggests" }, { "package": "foreach", "role": "Suggests" }, { "package": "jpeg", "role": "Suggests" }, { "package": "testthat", "version": ">= 0.3", "role": "Suggests" }, { "package": "knitr", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" }, { "package": "shiny", "role": "Suggests" }, { "package": "shinydashboard", "role": "Suggests" }, { "package": "shinyBS", "role": "Suggests" }, { "package": "rhandsontable", "role": "Suggests" }, { "package": "DT", "role": "Suggests" } ], "_owner": "cran", "_selfowned": false, "_usedby": 0, "_updates": [], "_tags": [], "_stars": 3, "_contributors": [ { "user": "aebilgrau", "count": 13, "uuid": 6087024 } ], "_userbio": { "uuid": 6899542, "type": "organization", "name": "cran", "description": "Unofficial read-only mirror of all CRAN R packages" }, "_downloads": { "count": 347, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/GMCM" }, "_mentions": 1, "_devurl": "https://github.com/aebilgrau/gmcm", "_searchresults": 67, "_topics": [ "openblas", "cpp" ], "_rbuild": "4.6.0", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/GMCM.html", "extra/NEWS.html", "extra/NEWS.txt", "extra/readme.html", "extra/readme.md", "manual.pdf" ], "_homeurl": "https://github.com/aebilgrau/gmcm", "_realowner": "aebilgrau", "_cranurl": false, "_releases": [ { "version": "1.0", "date": "2014-01-31" }, { "version": "1.0.1", "date": "2014-05-29" }, { "version": "1.1", "date": "2014-10-01" }, { "version": "1.1.1", "date": "2014-10-06" }, { "version": "1.2", "date": "2015-04-13" }, { "version": "1.2.1", "date": "2015-04-20" }, { "version": "1.2.2", "date": "2015-08-05" }, { "version": "1.2.3", "date": "2016-03-29" }, { "version": "1.2.4", "date": "2017-01-13" }, { "version": "1.3.0", "date": "2018-12-15" }, { "version": "1.3.1", "date": "2019-02-14" }, { "version": "1.3.2", "date": "2019-03-12" }, { "version": "1.4", "date": "2019-11-05" } ], "_exports": [ "as.theta", "choose.theta", "classify", "dmvnormal", "EMAlgorithm", "fit.full.GMCM", "fit.general.GMCM", "fit.meta.GMCM", "fit.special.GMCM", "full2meta", "get.IDR", "get.prob", "goodness.of.fit", "is.theta", "meta2full", "rmvnormal", "rtheta", "runGMCM", "SimulateGMCMData", "SimulateGMMData", "Uhat" ], "_datasets": [ { "name": "freshVsFrozen", "title": "Reproducibility between Fresh and Frozen B-cell subtypes", "object": "freshVsFrozen", "file": "freshVsFrozen.RData", "class": [ "data.frame" ], "fields": [ "PreVsPost.Fresh.tstat", "PreVsPost.Fresh.pval", "PreVsPost.Frozen.tstat", "PreVsPost.Frozen.pval", "FreshVsFrozen.tstat", "FreshVsFrozen.pval" ], "rows": 18708, "table": true, "tojson": true }, { "name": "u133VsExon", "title": "Reproducibility between U133 plus 2 and Exon microarrays", "object": "u133VsExon", "file": "u133VsExon.RData", "class": [ "data.frame" ], "fields": [ "u133", "exon" ], "rows": 19577, "table": true, "tojson": true } ], "_help": [ { "page": "GMCM-package", "title": "Fast optimization of Gaussian Mixture Copula Models", "topics": [ "GMCM-package", "GMCM" ] }, { "page": "as.theta", "title": "Coerce a list to a theta object", "topics": [ "as.theta" ] }, { "page": "choose.theta", "title": "Heuristically chosen starting value of theta", "topics": [ "choose.theta" ] }, { "page": "classify", "title": "Classify observations", "topics": [ "classify" ] }, { "page": "dmvnormal", "title": "Multivariate Gaussian density and simulation", "topics": [ "dmvnormal", "rmvnormal" ] }, { "page": "EMAlgorithm", "title": "EM algorithm for Gaussian mixture models", "topics": [ "EMAlgorithm" ] }, { "page": "fit.full.GMCM", "title": "Estimate GMCM parameters of the general model", "topics": [ "fit.full.GMCM", "fit.full.gmcm", "fit.general.GMCM", "fit.general.gmcm" ] }, { "page": "fit.meta.GMCM", "title": "Estimate GMCM parameters of the special model", "topics": [ "fit.meta.GMCM", "fit.meta.gmcm", "fit.special.GMCM", "fit.special.gmcm" ] }, { "page": "freshVsFrozen", "title": "Reproducibility between Fresh and Frozen B-cell subtypes", "topics": [ "freshVsFrozen" ] }, { "page": "full2meta", "title": "Convert between parameter formats", "topics": [ "full2meta", "meta2full" ] }, { "page": "get.IDR", "title": "Posterior class probabilities, local, and adjusted IDRs.", "topics": [ "get.IDR", "get.idr", "get.prob" ] }, { "page": "goodness.of.fit", "title": "Goodness of fit for the general GMCM", "topics": [ "goodness.of.fit" ] }, { "page": "is.theta", "title": "Check if parameters are valid", "topics": [ "is.theta" ] }, { "page": "plot.theta", "title": "Plotting method for \"theta\" objects", "topics": [ "plot.theta" ] }, { "page": "print.theta", "title": "Print method for theta class", "topics": [ "print.theta" ] }, { "page": "rtheta", "title": "Get random parameters for the Gaussian mixture (copula) model", "topics": [ "rtheta" ] }, { "page": "runGMCM", "title": "Run the GMCM shiny application", "topics": [ "runGMCM" ] }, { "page": "SimulateGMCMData", "title": "Simulation from Gaussian mixture (copula) models", "topics": [ "SimulateGMCMData", "SimulateGMMData" ] }, { "page": "summary.theta", "title": "Summary method for theta class", "topics": [ "summary.theta" ] }, { "page": "u133VsExon", "title": "Reproducibility between U133 plus 2 and Exon microarrays", "topics": [ "u133VsExon" ] }, { "page": "Uhat", "title": "Fast ranking function", "topics": [ "Uhat" ] } ], "_readme": "https://github.com/cran/GMCM/raw/HEAD/README.md", "_rundeps": [ "ellipse", "Rcpp", "RcppArmadillo" ], "_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": "libblas", "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": "GMCM-JStatSoft.Rnw", "filename": "GMCM-JStatSoft.pdf", "title": "An Introduction to GMCM", "engine": "knitr::knitr", "headings": [ "Introduction", "Gaussian mixture copula models", "The GMCM package", "Maximum likelihood estimation", "Applications", "Concluding remarks", "Session information" ], "created": "2015-04-13 00:00:00", "modified": "2019-11-05 21:10:02", "commits": 7 }, { "source": "usage-shiny-graphical-interface.Rmd", "filename": "usage-shiny-graphical-interface.html", "title": "GMCM shiny application", "author": "Anders Ellern Bilgrau", "engine": "knitr::rmarkdown", "headings": [], "created": "2019-11-05 21:10:02", "modified": "2019-11-05 21:10:02", "commits": 1 }, { "source": "usage-example-special-model.Rmd", "filename": "usage-example-special-model.html", "title": "Meta analysis with special GMCMs", "author": "Anders Ellern Bilgrau", "engine": "knitr::rmarkdown", "headings": [ "Initialization", "Loading data", "Initial parameters", "Model fitting", "Meta analysis with unsupervised clustering", "Results", "Session information", "References" ], "created": "2019-11-05 21:10:02", "modified": "2019-11-05 21:10:02", "commits": 1 }, { "source": "usage-example-general-model.Rmd", "filename": "usage-example-general-model.html", "title": "Unsupervised clustering with general GMCMs", "author": "Anders Ellern Bilgrau", "engine": "knitr::rmarkdown", "headings": [ "Initialization", "Simulation of data", "Initial parameters", "Model fitting", "Unsupervised clustering", "Results", "Session information", "References" ], "created": "2019-11-05 21:10:02", "modified": "2019-11-05 21:10:02", "commits": 1 } ], "_score": 4.60422605308447, "_indexed": false, "_nocasepkg": "gmcm", "_universes": [ "cran" ], "_indexurl": "https://aebilgrau.r-universe.dev/GMCM", "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.4", "date": "2026-06-13T08:02:53.000Z", "distro": "noble", "arch": "aarch64", "commit": "4554adad96567e342a026daa24dc0e87ea59b55d", "fileid": "4ab820ad938bd38a0598f90fd64715311601551f423df64770fe7b7bc3367432", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/cran/actions/runs/27460923656" }, { "r": "4.7.0", "os": "linux", "version": "1.4", "date": "2026-06-13T08:02:19.000Z", "distro": "noble", "arch": "x86_64", "commit": "4554adad96567e342a026daa24dc0e87ea59b55d", "fileid": "4205d2bb9793cd7b93c88a7f348566940e046c61e3bc63f330ebf10966e7d109", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/cran/actions/runs/27460923656" }, { "r": "4.6.0", "os": "linux", "version": "1.4", "date": "2026-06-13T08:02:44.000Z", "distro": "noble", "arch": "aarch64", "commit": "4554adad96567e342a026daa24dc0e87ea59b55d", "fileid": "aec18575b27726e54d9c5b3010e5a8295d67d2aa2c462be6df8d29ba6e3221fb", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/cran/actions/runs/27460923656" }, { "r": "4.6.0", "os": "linux", "version": "1.4", "date": "2026-06-13T08:02:31.000Z", "distro": "noble", "arch": "x86_64", "commit": "4554adad96567e342a026daa24dc0e87ea59b55d", "fileid": "5de8691b77be62f3584ff9e8b9728b799e215fb0fcaf77bd25823ea92c24301b", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/cran/actions/runs/27460923656" }, { "r": "4.6.0", "os": "wasm", "version": "1.4", "date": "2026-06-13T08:02:27.000Z", "arch": "emscripten", "commit": "4554adad96567e342a026daa24dc0e87ea59b55d", "fileid": "0f081c091ec3932ed58234b7cdb18b1741d383945fec083aedd43d501fff24ca", "status": "success", "buildurl": "https://github.com/r-universe/cran/actions/runs/27460923656" } ] }