{ "_id": "6a1533d3acfb0bcc41d4ee9e", "Package": "ClusROC", "Type": "Package", "Title": "ROC Analysis in Three-Class Classification Problems for\nClustered Data", "Date": "2022-11-17", "Version": "1.0.2", "Author": "Duc-Khanh To [aut, cre]\n(), with contributions\nfrom Gianfranco Adimari and Monica Chiogna", "Maintainer": "Duc-Khanh To ", "Description": "Statistical methods for ROC surface analysis in\nthree-class classification problems for clustered data and in\npresence of covariates. In particular, the package allows to\nobtain covariate-specific point and interval estimation for:\n(i) true class fractions (TCFs) at fixed pairs of thresholds;\n(ii) the ROC surface; (iii) the volume under ROC surface (VUS);\n(iv) the optimal pairs of thresholds. Methods considered in\npoints (i), (ii) and (iv) are proposed and discussed in To et\nal. (2022) . Referring to point\n(iv), three different selection criteria are implemented:\nGeneralized Youden Index (GYI), Closest to Perfection (CtP) and\nMaximum Volume (MV). Methods considered in point (iii) are\nproposed and discussed in Xiong et al. (2018)\n. Visualization tools are also\nprovided. We refer readers to the articles cited above for all\ndetails.", "License": "GPL-3", "Encoding": "UTF-8", "LazyData": "true", "LazyLoad": "yes", "ByteCompile": "yes", "RoxygenNote": "7.2.2", "NeedsCompilation": "yes", "URL": "https://github.com/toduckhanh/ClusROC", "BugReports": "https://github.com/toduckhanh/ClusROC/issues", "Config/testthat/edition": "3", "Config/pak/sysreqs": "cmake libfreetype6-dev libglu1-mesa-dev make\ntexlive libicu-dev libpng-dev libuv1-dev libgl1-mesa-dev\nzlib1g-dev", "Repository": "https://toduckhanh.r-universe.dev", "Date/Publication": "2022-11-17 15:03:13 UTC", "RemoteUrl": "https://github.com/toduckhanh/clusroc", "RemoteRef": "HEAD", "RemoteSha": "70eb50546c4ce8ee515a656907aa85c3b11ab951", "Packaged": { "Date": "2026-05-25 06:35:10 UTC", "User": "root" }, "MD5sum": "d8b298407650039a95b3b29f87a6ec47", "_user": "toduckhanh", "_type": "src", "_file": "ClusROC_1.0.2.tar.gz", "_fileid": "436accd4d7ec18852dc54882981b7a611f6b9cdcf11e9dec657a09ca392406b4", "_filesize": 314603, "_sha256": "436accd4d7ec18852dc54882981b7a611f6b9cdcf11e9dec657a09ca392406b4", "_created": "2026-05-25T06:35:10.000Z", "_published": "2026-05-26T05:46:58.986Z", "_distro": "noble", "_jobs": [ { "job": 77814573034, "time": 297, "config": "linux-devel-arm64", "r": "4.7.0", "check": "NOTE", "artifact": "7193016409" }, { "job": 77814572960, "time": 330, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "NOTE", "artifact": "7193024111" }, { "job": 77814573320, "time": 294, "config": "linux-release-arm64", "r": "4.6.0", "check": "NOTE", "artifact": "7193015400" }, { "job": 77814573331, "time": 259, "config": "linux-release-x86_64", "r": "4.6.0", "check": "NOTE", "artifact": "7193006989" }, { "job": 77814573138, "time": 213, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "NOTE", "artifact": "7192990138" }, { "job": 77814573309, "time": 541, "config": "macos-oldrel-x86_64", "r": "4.5.3", "check": "NOTE", "artifact": "7193065056" }, { "job": 77814572884, "time": 207, "config": "macos-release-arm64", "r": "4.6.0", "check": "NOTE", "artifact": "7209761379" }, { "job": 77814573214, "time": 589, "config": "macos-release-x86_64", "r": "4.6.0", "check": "NOTE", "artifact": "7193072883" }, { "job": 77814572749, "time": 361, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "7192944094" }, { "job": 77814573116, "time": 178, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7192986889" }, { "job": 77814573062, "time": 281, "config": "windows-devel", "r": "4.7.0", "check": "NOTE", "artifact": "7193012169" }, { "job": 77814573077, "time": 237, "config": "windows-oldrel", "r": "4.5.3", "check": "NOTE", "artifact": "7193001507" }, { "job": 77814572989, "time": 256, "config": "windows-release", "r": "4.6.0", "check": "NOTE", "artifact": "7193006351" } ], "_buildurl": "https://github.com/r-universe/toduckhanh/actions/runs/26386798385", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/toduckhanh/clusroc", "_commit": { "id": "70eb50546c4ce8ee515a656907aa85c3b11ab951", "author": "toduckhanh ", "committer": "toduckhanh ", "message": "new updates 17/11\n", "time": 1668697393 }, "_maintainer": { "name": "Duc-Khanh To", "email": "toduc@stat.unipd.it", "login": "toduckhanh", "description": "", "uuid": 22749496 }, "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 3.5.0", "role": "Depends" }, { "package": "stats", "role": "Depends" }, { "package": "utils", "role": "Depends" }, { "package": "graphics", "role": "Depends" }, { "package": "nlme", "role": "Depends" }, { "package": "Rcpp", "version": ">= 0.12.3", "role": "Depends" }, { "package": "Rcpp", "role": "LinkingTo" }, { "package": "RcppArmadillo", "role": "LinkingTo" }, { "package": "rgl", "role": "Imports" }, { "package": "ellipse", "role": "Imports" }, { "package": "numDeriv", "role": "Imports" }, { "package": "ggplot2", "role": "Imports" }, { "package": "ggpubr", "role": "Imports" }, { "package": "foreach", "role": "Imports" }, { "package": "iterators", "role": "Imports" }, { "package": "parallel", "role": "Imports" }, { "package": "doParallel", "role": "Imports" }, { "package": "testthat", "version": ">= 3.0.0", "role": "Suggests" } ], "_owner": "toduckhanh", "_selfowned": true, "_usedby": 0, "_updates": [], "_tags": [], "_topics": [ "biomaker", "box-cox-transformation", "mixed-effects-models", "optimal-threshold", "reciver-operating-characteristics", "cpp" ], "_stars": 0, "_contributors": [ { "user": "toduckhanh", "count": 238, "uuid": 22749496 } ], "_userbio": { "uuid": 22749496, "type": "user", "name": "Duc-Khanh To, Ph.D" }, "_downloads": { "count": 282, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/ClusROC" }, "_devurl": "https://github.com/toduckhanh/clusroc", "_searchresults": 6, "_rbuild": "4.6.0", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/ClusROC.html", "extra/contents.json", "extra/NEWS.html", "extra/NEWS.txt", "extra/readme.html", "extra/readme.md", "manual.pdf" ], "_homeurl": "https://github.com/toduckhanh/clusroc", "_realowner": "toduckhanh", "_cranurl": true, "_releases": [ { "version": "1.0.1", "date": "2022-05-25" }, { "version": "1.0.2", "date": "2022-11-17" }, { "version": "1.0.3", "date": "2025-10-03" } ], "_exports": [ "ci_clus_vus", "clus_lme", "clus_opt_thres3", "clus_roc_surface", "clus_tcfs", "clus_vus" ], "_datasets": [ { "name": "data_3class", "title": "A simulated data", "object": "data_3class", "class": [ "data.frame" ], "fields": [ "id_Clus", "Y", "D", "X1", "X2" ], "rows": 225, "table": true, "tojson": true }, { "name": "data_3class_bcx", "title": "A simulated data", "object": "data_3class_bcx", "class": [ "data.frame" ], "fields": [ "id_Clus", "Y", "D", "X" ], "rows": 582, "table": true, "tojson": true }, { "name": "EnergyEthiopia", "title": "A subset of energy choice data in 4 cities of Ethiopia", "object": "EnergyEthiopia", "class": [ "tbl_df", "tbl", "data.frame" ], "fields": [ "uqid", "energy2", "hhs", "hhs_ft", "lrconsaeu", "lfirewood_pr", "lcharcol_pr", "lkerosene_pr", "lelectric_pr" ], "rows": 2088, "table": true, "tojson": true }, { "name": "MouseNeurons", "title": "A subset of mouse brain cells data", "object": "MouseNeurons", "class": [ "data.frame" ], "fields": [ "sample_name", "subclass_label", "genotype_id", "sex", "age_days", "Slc17a7_cpm", "Lamp5_cpm" ], "rows": 860, "table": true, "tojson": true } ], "_help": [ { "page": "ClusROC-package", "title": "ROC Analysis in Three-Class Classification Problems for Clustered Data", "topics": [ "ClusROC-package", "ClusROC" ] }, { "page": "ci_clus_vus", "title": "Confidence Intervals for Covariate-specific VUS", "topics": [ "ci_clus_vus" ] }, { "page": "clus_lme", "title": "Linear Mixed-Effects Models for a continuous diagnostic test or a biomarker (or a classifier).", "topics": [ "clus_lme" ] }, { "page": "clus_opt_thres3", "title": "Estimation of the covariate-specific optimal pair of thresholds for clustered data.", "topics": [ "clus_opt_thres3" ] }, { "page": "clus_roc_surface", "title": "Plot an estimated covariate-specific ROC surface for clustered data.", "topics": [ "clus_roc_surface" ] }, { "page": "clus_tcfs", "title": "Estimation of the covariate-specific TCFs for clustered data.", "topics": [ "clus_tcfs" ] }, { "page": "clus_vus", "title": "Estimation of the covariate-specific VUS for clustered data.", "topics": [ "clus_vus" ] }, { "page": "data_3class", "title": "A simulated data", "topics": [ "data_3class" ] }, { "page": "data_3class_bcx", "title": "A simulated data", "topics": [ "data_3class_bcx" ] }, { "page": "EnergyEthiopia", "title": "A subset of energy choice data in 4 cities of Ethiopia", "topics": [ "EnergyEthiopia" ] }, { "page": "MouseNeurons", "title": "A subset of mouse brain cells data", "topics": [ "MouseNeurons" ] }, { "page": "plot.clus_lme", "title": "Plot an clus_lme object.", "topics": [ "plot.clus_lme" ] }, { "page": "plot.clus_opt_thres3", "title": "Plot of confidence regions for covariate-specific optimal pair of thresholds.", "topics": [ "plot.clus_opt_thres3" ] }, { "page": "print.ci_clus_vus", "title": "Print summary results from ci_clus_vus", "topics": [ "print.ci_clus_vus" ] }, { "page": "print.clus_lme", "title": "Print summary results of an clus_lme object", "topics": [ "print.clus_lme" ] }, { "page": "print.clus_opt_thres3", "title": "Print summary results from 'clus_opt_thres3'", "topics": [ "print.clus_opt_thres3" ] }, { "page": "print.clus_tcfs", "title": "Print summary results from clus_tcfs", "topics": [ "print.clus_tcfs" ] }, { "page": "print.clus_vus", "title": "Print summary results from clus_vus", "topics": [ "print.clus_vus" ] } ], "_readme": "https://github.com/toduckhanh/clusroc/raw/HEAD/README.md", "_rundeps": [ "abind", "backports", "base64enc", "boot", "broom", "bslib", "cachem", "car", "carData", "cli", "codetools", "colorspace", "corrplot", "cowplot", "cpp11", "Deriv", "digest", "doBy", "doParallel", "dplyr", "ellipse", "evaluate", "farver", "fastmap", "fontawesome", "foreach", "forecast", "Formula", "fracdiff", "fs", "generics", "ggplot2", "ggpubr", "ggrepel", "ggsci", "ggsignif", "glue", "gridExtra", "gtable", "highr", "htmltools", "htmlwidgets", "isoband", "iterators", "jquerylib", "jsonlite", "knitr", "labeling", "lattice", "lifecycle", "lme4", "lmtest", "magrittr", "MASS", "Matrix", "MatrixModels", "memoise", "mgcv", "microbenchmark", "mime", "minqa", "modelr", "nlme", "nloptr", "nnet", "numDeriv", "pbkrtest", "pillar", "pkgconfig", "polynom", "purrr", "quantreg", "R6", "rappdirs", "rbibutils", "RColorBrewer", "Rcpp", "RcppArmadillo", "RcppEigen", "Rdpack", "reformulas", "rgl", "rlang", "rmarkdown", "rstatix", "S7", "sass", "scales", "SparseM", "stringi", "stringr", "survival", "tibble", "tidyr", "tidyselect", "timeDate", "tinytex", "urca", "utf8", "vctrs", "viridisLite", "withr", "xfun", "yaml", "zoo" ], "_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": 2.6989700043360187, "_indexed": true, "_nocasepkg": "clusroc", "_universes": [ "toduckhanh" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.0.2", "date": "2026-05-25T06:38:38.000Z", "distro": "noble", "arch": "aarch64", "commit": "70eb50546c4ce8ee515a656907aa85c3b11ab951", "fileid": "4ff9125303f157e9bfc6ccebdcafce94da20c15b52d8f30102152828f6b86d1e", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/toduckhanh/actions/runs/26386798385" }, { "r": "4.7.0", "os": "linux", "version": "1.0.2", "date": "2026-05-25T06:39:06.000Z", "distro": "noble", "arch": "x86_64", "commit": "70eb50546c4ce8ee515a656907aa85c3b11ab951", "fileid": "80d4093251cd676aa2ee28c4a51c37b598c8b19f3bb75911889018587f855934", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/toduckhanh/actions/runs/26386798385" }, { "r": "4.6.0", "os": "linux", "version": "1.0.2", "date": "2026-05-25T06:38:38.000Z", "distro": "noble", "arch": "aarch64", "commit": "70eb50546c4ce8ee515a656907aa85c3b11ab951", "fileid": "19fc3244ad17f79cd856705d459e38e2ae41f50bb3895c8f6424ea8c8da7e57b", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/toduckhanh/actions/runs/26386798385" }, { "r": "4.6.0", "os": "linux", "version": "1.0.2", "date": "2026-05-25T06:38:24.000Z", "distro": "noble", "arch": "x86_64", "commit": "70eb50546c4ce8ee515a656907aa85c3b11ab951", "fileid": "66ccb22f1a5890c11234c1400f1ec7a47defb0be6e03ca068047b5c25b51e095", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/toduckhanh/actions/runs/26386798385" }, { "r": "4.5.3", "os": "mac", "version": "1.0.2", "date": "2026-05-25T06:37:18.000Z", "arch": "aarch64", "commit": "70eb50546c4ce8ee515a656907aa85c3b11ab951", "fileid": "cf29b26930fb86848767a7cb6ae6608202f7c775a41cccae0f59f178088ccc6c", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/toduckhanh/actions/runs/26386798385" }, { "r": "4.5.3", "os": "mac", "version": "1.0.2", "date": "2026-05-25T06:39:19.000Z", "arch": "x86_64", "commit": "70eb50546c4ce8ee515a656907aa85c3b11ab951", "fileid": "082ab068970dbbc6c93ba2f88d4eb5f2bdebcf984befc0aa1234d48ae22b5472", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/toduckhanh/actions/runs/26386798385" }, { "r": "4.6.0", "os": "mac", "version": "1.0.2", "date": "2026-05-26T05:44:48.000Z", "arch": "aarch64", "commit": "70eb50546c4ce8ee515a656907aa85c3b11ab951", "fileid": "d09ec4c280d0b650c546682fd3e5a5a397ea94902381516b4fe3a1e9777b8215", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/toduckhanh/actions/runs/26386798385" }, { "r": "4.6.0", "os": "mac", "version": "1.0.2", "date": "2026-05-25T06:39:26.000Z", "arch": "x86_64", "commit": "70eb50546c4ce8ee515a656907aa85c3b11ab951", "fileid": "4075a099ebe3f9c08205ad033fcb7fcc9bc7f8a83e4bb0543f19676df89533f4", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/toduckhanh/actions/runs/26386798385" }, { "r": "4.6.0", "os": "wasm", "version": "1.0.2", "date": "2026-05-25T06:38:28.000Z", "arch": "emscripten", "commit": "70eb50546c4ce8ee515a656907aa85c3b11ab951", "fileid": "466c1033c6e2ee47079e177f851d18a84cb8da2d2478d4c597a28e466d1f15ba", "status": "success", "buildurl": "https://github.com/r-universe/toduckhanh/actions/runs/26386798385" }, { "r": "4.7.0", "os": "win", "version": "1.0.2", "date": "2026-05-25T06:37:09.000Z", "arch": "x86_64", "commit": "70eb50546c4ce8ee515a656907aa85c3b11ab951", "fileid": "c3a6ee27092feb3ad3de365f32bf955b1749f3a393e3b67c076e6b733c495c62", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/toduckhanh/actions/runs/26386798385" }, { "r": "4.5.3", "os": "win", "version": "1.0.2", "date": "2026-05-25T06:36:52.000Z", "arch": "x86_64", "commit": "70eb50546c4ce8ee515a656907aa85c3b11ab951", "fileid": "a99abf851b94bef0f5b1e943514dddc1941f031806198cabe589d8d2408af7fe", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/toduckhanh/actions/runs/26386798385" }, { "r": "4.6.0", "os": "win", "version": "1.0.2", "date": "2026-05-25T06:36:41.000Z", "arch": "x86_64", "commit": "70eb50546c4ce8ee515a656907aa85c3b11ab951", "fileid": "b4dd7c82eb60d46802dfa940778f5fffd8d814334a1887da5ee08bd9e9f2c193", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/toduckhanh/actions/runs/26386798385" } ] }