{ "_id": "6a1819a8acfb0bcc41db0882", "Package": "longmixr", "Title": "Longitudinal Consensus Clustering with 'flexmix'", "Version": "1.2.0", "Authors@R": "c(person(given = \"Jonas\",\nfamily = \"Hagenberg\",\nrole = c(\"aut\", \"cre\"),\nemail = \"jonas_hagenberg@psych.mpg.de\",\ncomment = c(ORCID = \"0000-0002-1849-1106\")),\nperson(given = \"Matt\",\nfamily = \"Wilkerson\",\nrole = c(\"aut\", \"cph\")),\nperson(given = \"Peter\",\nfamily = \"Waltman\",\nrole = c(\"aut\", \"cph\")),\nperson(given = \"Max Planck Institute of Psychiatry\",\nrole = \"cph\"))", "Description": "An adaption of the consensus clustering approach from\n'ConsensusClusterPlus' for longitudinal data. The longitudinal\ndata is clustered with flexible mixture models from 'flexmix',\nwhile the consensus matrices are hierarchically clustered as in\n'ConsensusClusterPlus'. By using the flexibility from 'flexmix'\nand 'FactoMineR', one can use mixed data types for the\nclustering.", "License": "GPL (>= 2)", "Encoding": "UTF-8", "LazyData": "true", "Roxygen": "list(markdown = TRUE)", "RoxygenNote": "7.1.1", "URL": "https://cellmapslab.github.io/longmixr/", "BugReports": "https://github.com/cellmapslab/longmixr/issues", "biocViews": "", "Config/testthat/edition": "3", "VignetteBuilder": "knitr", "Config/pak/sysreqs": "make", "Repository": "https://cellmapslab.r-universe.dev", "Date/Publication": "2024-02-06 20:54:49 UTC", "RemoteUrl": "https://github.com/cellmapslab/longmixr", "RemoteRef": "HEAD", "RemoteSha": "be8d46f3e1880e5c9d13803cb61f1164e5426392", "NeedsCompilation": "no", "Packaged": { "Date": "2026-05-28 10:27:42 UTC", "User": "root" }, "Author": "Jonas Hagenberg [aut, cre] (ORCID:\n),\nMatt Wilkerson [aut, cph],\nPeter Waltman [aut, cph],\nMax Planck Institute of Psychiatry [cph]", "Maintainer": "Jonas Hagenberg ", "MD5sum": "e155a1ecbd4c919d2a1f746d98f38d7e", "_user": "cellmapslab", "_type": "src", "_file": "longmixr_1.2.0.tar.gz", "_fileid": "bad257af31031f19ccea55ee49a3e954d3e551ec9e4b742734d0d7b63be60fce", "_filesize": 6547478, "_sha256": "bad257af31031f19ccea55ee49a3e954d3e551ec9e4b742734d0d7b63be60fce", "_created": "2026-05-28T10:27:42.000Z", "_published": "2026-05-28T10:32:08.669Z", "_distro": "noble", "_jobs": [ { "job": 78271776008, "time": 223, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "ERROR", "artifact": "7263602338" }, { "job": 78271775975, "time": 187, "config": "linux-release-x86_64", "r": "4.6.0", "check": "ERROR", "artifact": "7263591624" }, { "job": 78271776100, "time": 170, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "ERROR", "artifact": "7263585702" }, { "job": 78271775986, "time": 163, "config": "macos-release-arm64", "r": "4.6.0", "check": "ERROR", "artifact": "7263583908" }, { "job": 78271114175, "time": 259, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "7263531690" }, { "job": 78271775955, "time": 145, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7263577308" }, { "job": 78271775979, "time": 157, "config": "windows-devel", "r": "4.7.0", "check": "ERROR", "artifact": "7263581802" }, { "job": 78271776025, "time": 142, "config": "windows-oldrel", "r": "4.5.3", "check": "ERROR", "artifact": "7263576251" }, { "job": 78271776096, "time": 125, "config": "windows-release", "r": "4.6.0", "check": "ERROR", "artifact": "7263570578" } ], "_buildurl": "https://github.com/r-universe/cellmapslab/actions/runs/26569016125", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/cellmapslab/longmixr", "_commit": { "id": "be8d46f3e1880e5c9d13803cb61f1164e5426392", "author": "Jonas Hagenberg <38041374+jonas-hag@users.noreply.github.com>", "committer": "GitHub ", "message": "Merge pull request #17 from cellmapslab/additional_plotting_options\n\nAdd plotting functions plot_spaghetti and plot_alluvial", "time": 1707252889 }, "_maintainer": { "name": "Jonas Hagenberg", "email": "jonas_hagenberg@psych.mpg.de", "login": "jhagenberg", "description": "", "uuid": 69464999, "orcid": "0000-0002-1849-1106" }, "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 3.5.0", "role": "Depends" }, { "package": "checkmate", "role": "Imports" }, { "package": "ConsensusClusterPlus", "role": "Imports" }, { "package": "ggplot2", "role": "Imports" }, { "package": "graphics", "role": "Imports" }, { "package": "grDevices", "role": "Imports" }, { "package": "flexmix", "role": "Imports" }, { "package": "StatMatch", "role": "Imports" }, { "package": "stats", "role": "Imports" }, { "package": "utils", "role": "Imports" }, { "package": "testthat", "version": ">= 3.0.0", "role": "Suggests" }, { "package": "knitr", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" }, { "package": "dplyr", "role": "Suggests" }, { "package": "tidyr", "role": "Suggests" }, { "package": "ggalluvial", "role": "Suggests" }, { "package": "FactoMineR", "role": "Suggests" }, { "package": "factoextra", "role": "Suggests" }, { "package": "lme4", "role": "Suggests" }, { "package": "purrr", "role": "Suggests" } ], "_owner": "cellmapslab", "_selfowned": true, "_usedby": 0, "_updates": [], "_tags": [], "_stars": 4, "_contributors": [ { "user": "jhagenberg", "count": 62, "uuid": 69464999 }, { "user": "jonas-hag", "count": 26, "uuid": 38041374 } ], "_userbio": { "uuid": 37875045, "type": "organization", "name": "Computational Cell Maps" }, "_downloads": { "count": 216, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/longmixr" }, "_devurl": "https://github.com/cellmapslab/longmixr", "_pkgdown": "https://cellmapslab.github.io/longmixr/", "_searchresults": 7, "_rbuild": "4.6.0", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/longmixr.html", "extra/NEWS.html", "extra/NEWS.txt", "extra/readme.html", "extra/readme.md", "manual.pdf" ], "_homeurl": "https://github.com/cellmapslab/longmixr", "_realowner": "cellmapslab", "_cranurl": true, "_releases": [ { "version": "1.0.0", "date": "2022-01-13" } ], "_exports": [ "crosssectional_consensus_cluster", "get_clusters", "longitudinal_consensus_cluster", "plot_alluvial", "plot_spaghetti", "test_clustering_methods" ], "_datasets": [ { "name": "fake_questionnaire_data", "title": "Fake questionnaire data", "object": "fake_questionnaire_data", "class": [ "data.frame" ], "fields": [ "ID", "visit", "group", "age_visit_1", "single_continuous_variable", "questionnaire_A_1", "questionnaire_A_2", "questionnaire_A_3", "questionnaire_A_4", "questionnaire_A_5", "questionnaire_B_1", "questionnaire_B_2", "questionnaire_B_3", "questionnaire_B_4", "questionnaire_B_5", "questionnaire_C_1", "questionnaire_C_2", "questionnaire_C_3", "questionnaire_C_4", "questionnaire_C_5" ], "rows": 400, "table": true, "tojson": true } ], "_help": [ { "page": "crosssectional_consensus_cluster", "title": "Cross-sectional clustering with categorical variables", "topics": [ "crosssectional_consensus_cluster" ] }, { "page": "fake_questionnaire_data", "title": "Fake questionnaire data", "topics": [ "fake_questionnaire_data" ] }, { "page": "get_clusters", "title": "Extract the cluster assignments", "topics": [ "get_clusters" ] }, { "page": "longitudinal_consensus_cluster", "title": "Longitudinal consensus clustering with flexmix", "topics": [ "longitudinal_consensus_cluster" ] }, { "page": "plot_alluvial", "title": "Alluvial plot for longmixr clusterings", "topics": [ "plot_alluvial" ] }, { "page": "plot_spaghetti", "title": "Spaghetti plot for longmixr clusterings", "topics": [ "plot_spaghetti" ] }, { "page": "plot.lcc", "title": "Plot a longitudinal consensus clustering", "topics": [ "plot.lcc" ] }, { "page": "test_clustering_methods", "title": "Try out different linkage methods", "topics": [ "test_clustering_methods" ] } ], "_readme": "https://github.com/cellmapslab/longmixr/raw/HEAD/README.md", "_rundeps": [ "ALL", "backports", "Biobase", "BiocGenerics", "checkmate", "cli", "cluster", "ConsensusClusterPlus", "cpp11", "DBI", "dplyr", "farver", "flexmix", "generics", "ggplot2", "glue", "gtable", "isoband", "labeling", "lattice", "lifecycle", "lpSolve", "magrittr", "Matrix", "minqa", "mitools", "modeltools", "nnet", "numDeriv", "pillar", "pkgconfig", "proxy", "R6", "RColorBrewer", "Rcpp", "RcppArmadillo", "rlang", "S7", "scales", "StatMatch", "survey", "survival", "tibble", "tidyselect", "utf8", "vctrs", "viridisLite", "withr" ], "_vignettes": [ { "source": "analysis_workflow.Rmd", "filename": "analysis_workflow.html", "title": "Example clustering analysis", "engine": "knitr::rmarkdown", "headings": [ "Introduction", "Consensus clustering", "Data", "Overview", "Dimension reduction", "Variable importance", "Effect of confounders", "Clustering", "Analyze the clustering", "Determine the best clustering", "Visualize the clusters", "Components used in clustering", "Original data", "Cluster comparison" ], "created": "2021-11-19 10:59:17", "modified": "2024-02-06 20:54:49", "commits": 6 } ], "_score": 4.301029995663981, "_indexed": true, "_nocasepkg": "longmixr", "_universes": [ "cellmapslab", "jhagenberg" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.2.0", "date": "2026-05-28T10:30:56.000Z", "distro": "noble", "commit": "be8d46f3e1880e5c9d13803cb61f1164e5426392", "fileid": "89c9048c981952d57f15cc35b65cf7d67305245325e077918f007274f9ad0b2a", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/cellmapslab/actions/runs/26569016125" }, { "r": "4.6.0", "os": "linux", "version": "1.2.0", "date": "2026-05-28T10:30:25.000Z", "distro": "noble", "commit": "be8d46f3e1880e5c9d13803cb61f1164e5426392", "fileid": "46d271fa82f93ecefd8c29963161e44eb34d610c149ab5c8c8ca595848a3d669", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/cellmapslab/actions/runs/26569016125" }, { "r": "4.5.3", "os": "mac", "version": "1.2.0", "date": "2026-05-28T10:30:23.000Z", "commit": "be8d46f3e1880e5c9d13803cb61f1164e5426392", "fileid": "2b0fbd40978606449e0e1d6b1dd84263c2a1d76943d12cfe9e963abd79df5ec0", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/cellmapslab/actions/runs/26569016125" }, { "r": "4.6.0", "os": "mac", "version": "1.2.0", "date": "2026-05-28T10:30:10.000Z", "commit": "be8d46f3e1880e5c9d13803cb61f1164e5426392", "fileid": "cc3a7dd9d9767bd8a42d0222d81bdafa7b210d3535f62d95e4b5a8670b647913", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/cellmapslab/actions/runs/26569016125" }, { "r": "4.6.0", "os": "wasm", "version": "1.2.0", "date": "2026-05-28T10:30:26.000Z", "commit": "be8d46f3e1880e5c9d13803cb61f1164e5426392", "fileid": "c8f9887e8f35f77849e2d0088f7b5a1ebc5e692b32c290ec5721b02663ec3ae3", "status": "success", "buildurl": "https://github.com/r-universe/cellmapslab/actions/runs/26569016125" }, { "r": "4.7.0", "os": "win", "version": "1.2.0", "date": "2026-05-28T10:29:46.000Z", "commit": "be8d46f3e1880e5c9d13803cb61f1164e5426392", "fileid": "32a71aa21a486b3bd8d8928f8013875c1bca6e9872daafc2253dd4073d3264e2", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/cellmapslab/actions/runs/26569016125" }, { "r": "4.5.3", "os": "win", "version": "1.2.0", "date": "2026-05-28T10:29:28.000Z", "commit": "be8d46f3e1880e5c9d13803cb61f1164e5426392", "fileid": "5707d3606f675ddfcda40fe9562011e9b3f1a31d4c96b97f947712bd2c67753b", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/cellmapslab/actions/runs/26569016125" }, { "r": "4.6.0", "os": "win", "version": "1.2.0", "date": "2026-05-28T10:29:14.000Z", "commit": "be8d46f3e1880e5c9d13803cb61f1164e5426392", "fileid": "cb8e89cb52aaff4d7e74b6de703c193973a375f6b07721a3e48058e2d8929f06", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/cellmapslab/actions/runs/26569016125" } ] }