{ "_id": "6a1ef058b401979e73412fd8", "Package": "IMIFA", "Type": "Package", "Date": "2023-12-12", "Title": "Infinite Mixtures of Infinite Factor Analysers and Related\nModels", "Version": "2.2.0", "Authors@R": "c(person(\"Keefe\", \"Murphy\", email = \"keefe.murphy@mu.ie\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0002-7709-3159\")),\nperson(\"Cinzia\", \"Viroli\", email = \"cinzia.viroli@unibo.it\", role = \"ctb\", comment = c(ORCID = \"0000-0002-3278-5266\")),\nperson(\"Isobel Claire\", \"Gormley\", email = \"claire.gormley@ucd.ie\", role = \"ctb\", comment = c(ORCID = \"0000-0001-7713-681X\")))", "Description": "Provides flexible Bayesian estimation of Infinite Mixtures\nof Infinite Factor Analysers and related models, for\nnonparametrically clustering high-dimensional data, introduced\nby Murphy et al. (2020) . The IMIFA\nmodel conducts Bayesian nonparametric model-based clustering\nwith factor analytic covariance structures without recourse to\nmodel selection criteria to choose the number of clusters or\ncluster-specific latent factors, mostly via efficient Gibbs\nupdates. Model-specific diagnostic tools are also provided, as\nwell as many options for plotting results, conducting posterior\ninference on parameters of interest, posterior predictive\nchecking, and quantifying uncertainty.", "License": "GPL (>= 3)", "Encoding": "UTF-8", "URL": "https://cran.r-project.org/package=IMIFA", "BugReports": "https://github.com/Keefe-Murphy/IMIFA", "LazyData": "true", "RoxygenNote": "7.2.3", "VignetteBuilder": "knitr", "Collate": "'MainFunction.R' 'Diagnostics.R' 'FullConditionals.R'\n'Gibbs_FA.R' 'Gibbs_IFA.R' 'Gibbs_IMFA.R' 'Gibbs_IMIFA.R'\n'Gibbs_MFA.R' 'Gibbs_MIFA.R' 'Gibbs_OMFA.R' 'Gibbs_OMIFA.R'\n'IMIFA.R' 'PlottingFunctions.R' 'SimulateData.R' 'data.R'", "Config/pak/sysreqs": "make", "Repository": "https://keefe-murphy.r-universe.dev", "Date/Publication": "2023-12-12 13:51:27 UTC", "RemoteUrl": "https://github.com/keefe-murphy/imifa", "RemoteRef": "HEAD", "RemoteSha": "bb2611691c42a7e396b6958a1d3b536bfc707b79", "NeedsCompilation": "no", "Packaged": { "Date": "2026-05-19 08:23:48 UTC", "User": "root" }, "Author": "Keefe Murphy [aut, cre] (ORCID:\n),\nCinzia Viroli [ctb] (ORCID: ),\nIsobel Claire Gormley [ctb] (ORCID:\n)", "Maintainer": "Keefe Murphy ", "MD5sum": "33511290d074f43408db2ff6f94ea09b", "_user": "keefe-murphy", "_type": "src", "_file": "IMIFA_2.2.0.tar.gz", "_fileid": "53cbbd8d3142abb3c5ef109b33dae7f0bed01e5e395b0a91bc8bd00f83cffef4", "_filesize": 3597700, "_sha256": "53cbbd8d3142abb3c5ef109b33dae7f0bed01e5e395b0a91bc8bd00f83cffef4", "_created": "2026-05-19T08:23:48.000Z", "_published": "2026-06-02T15:01:44.325Z", "_distro": "noble", "_jobs": [ { "job": 79101941458, "time": 168, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "7078472269" }, { "job": 79101941477, "time": 174, "config": "linux-release-x86_64", "r": "4.6.0", "check": "OK", "artifact": "7078474328" }, { "job": 79101941832, "time": 226, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "7078496142" }, { "job": 79101941541, "time": 205, "config": "macos-release-arm64", "r": "4.6.0", "check": "OK", "artifact": "7078496627" }, { "job": 79101940202, "time": 234, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "7078415195" }, { "job": 79101939963, "time": 113, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7361485681" }, { "job": 79101941534, "time": 186, "config": "windows-devel", "r": "4.7.0", "check": "OK", "artifact": "7078478833" }, { "job": 79101942377, "time": 121, "config": "windows-oldrel", "r": "4.5.3", "check": "OK", "artifact": "7078456469" }, { "job": 79101941660, "time": 126, "config": "windows-release", "r": "4.6.0", "check": "OK", "artifact": "7078458416" } ], "_buildurl": "https://github.com/r-universe/keefe-murphy/actions/runs/26085198010", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/keefe-murphy/imifa", "_commit": { "id": "bb2611691c42a7e396b6958a1d3b536bfc707b79", "author": "Keefe-Murphy ", "committer": "Keefe-Murphy ", "message": "Updated License and examples relating to Suggests. Modified .Rbuildignore & .gitignore. Replaced /itemize with /describe. Prepared CRAN release.\n", "time": 1702389087 }, "_maintainer": { "name": "Keefe Murphy", "email": "keefe.murphy@mu.ie", "login": "keefe-murphy", "orcid": "0000-0002-7709-3159", "description": "", "uuid": 15124488 }, "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 4.0.0", "role": "Depends" }, { "package": "matrixStats", "version": ">= 1.0.0", "role": "Imports" }, { "package": "mclust", "version": ">= 5.4", "role": "Imports" }, { "package": "mvnfast", "role": "Imports" }, { "package": "Rfast", "version": ">= 1.9.8", "role": "Imports" }, { "package": "slam", "role": "Imports" }, { "package": "viridisLite", "role": "Imports" }, { "package": "gmp", "version": ">= 0.5-4", "role": "Suggests" }, { "package": "knitr", "role": "Suggests" }, { "package": "mcclust", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" }, { "package": "Rmpfr", "role": "Suggests" } ], "_owner": "keefe-murphy", "_selfowned": true, "_usedby": 1, "_updates": [], "_tags": [], "_topics": [ "bayesian-nonparametrics", "dimension-reduction", "factor-analysis", "gaussian-mixture-model", "model-based-clustering" ], "_stars": 9, "_contributors": [ { "user": "keefe-murphy", "count": 13, "uuid": 15124488 } ], "_userbio": { "uuid": 15124488, "type": "user", "name": "Keefe Murphy" }, "_downloads": { "count": 395, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/IMIFA" }, "_devurl": "https://github.com/keefe-murphy/imifa", "_searchresults": 62, "_rbuild": "4.6.0", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/IMIFA.html", "extra/NEWS.html", "extra/NEWS.txt", "extra/readme.html", "extra/readme.md", "manual.pdf" ], "_homeurl": "https://github.com/keefe-murphy/imifa", "_realowner": "keefe-murphy", "_cranurl": true, "_releases": [ { "version": "1.1.0", "date": "2017-02-05" }, { "version": "1.2.0", "date": "2017-05-09" }, { "version": "1.2.1", "date": "2017-05-29" }, { "version": "1.3.0", "date": "2017-06-21" }, { "version": "1.3.1", "date": "2017-07-07" }, { "version": "2.0.0", "date": "2018-05-01" }, { "version": "2.1.0", "date": "2019-02-04" }, { "version": "2.1.1", "date": "2019-12-11" }, { "version": "2.1.2", "date": "2020-03-30" }, { "version": "2.1.3", "date": "2020-05-12" }, { "version": "2.1.4", "date": "2020-11-18" }, { "version": "2.1.5", "date": "2021-01-05" }, { "version": "2.1.6", "date": "2021-05-24" }, { "version": "2.1.7", "date": "2021-10-08" }, { "version": "2.1.8", "date": "2021-12-19" }, { "version": "2.1.9", "date": "2022-08-15" }, { "version": "2.1.10", "date": "2022-12-20" }, { "version": "2.2.0", "date": "2023-12-12" } ], "_exports": [ "bnpControl", "exp_ltrgamma", "G_calibrate", "G_expected", "G_priorDensity", "G_variance", "get_IMIFA_results", "gumbel_max", "heat_legend", "IMIFA_news", "is.cols", "is.posi_def", "Ledermann", "mat2cols", "mcmc_IMIFA", "MGP_check", "mgpControl", "mixfaControl", "pareto_scale", "PGMM_dfree", "plot_cols", "post_conf_mat", "Procrustes", "psi_hyper", "rDirichlet", "rltrgamma", "scores_MAP", "shift_GA", "show_digit", "show_IMIFA_digit", "sim_IMIFA_data", "sim_IMIFA_model", "storeControl", "Zsimilarity" ], "_datasets": [ { "name": "coffee", "title": "Chemical composition of Arabica and Robusta coffee samples", "object": "coffee", "class": [ "data.frame" ], "fields": [ "Variety", "Country", "Water", "Bean Weight", "Extract Yield", "ph Value", "Free Acid", "Mineral Content", "Fat", "Caffine", "Trigonelline", "Chlorogenic Acid", "Neochlorogenic Acid", "Isochlorogenic Acid" ], "rows": 43, "table": true, "tojson": true }, { "name": "olive", "title": "Fatty acid composition of Italian olive oils", "object": "olive", "class": [ "data.frame" ], "fields": [ "area", "region", "palmitic", "palmitoleic", "stearic", "oleic", "linoleic", "linolenic", "arachidic", "eicosenoic" ], "rows": 572, "table": true, "tojson": true }, { "name": "USPSdigits", "title": "USPS handwritten digits", "object": "USPSdigits", "class": [ "list" ], "fields": [], "table": true, "tojson": true } ], "_help": [ { "page": "IMIFA-package", "title": "IMIFA: Infinite Mixtures of Infinite Factor Analysers and Related Models", "topics": [ "IMIFA-package", "IMIFA" ] }, { "page": "bnpControl", "title": "Control settings for the Bayesian Nonparametric priors for infinite mixture models (or shrinkage priors for overfitted mixtures)", "topics": [ "bnpControl" ] }, { "page": "coffee", "title": "Chemical composition of Arabica and Robusta coffee samples", "topics": [ "coffee" ] }, { "page": "G_moments", "title": "1st & 2nd Moments of the Pitman-Yor / Dirichlet Processes", "topics": [ "G_calibrate", "G_expected", "G_moments", "G_variance" ] }, { "page": "G_priorDensity", "title": "Plot Pitman-Yor / Dirichlet Process Priors", "topics": [ "G_priorDensity" ] }, { "page": "get_IMIFA_results", "title": "Extract results, conduct posterior inference and compute performance metrics for MCMC samples of models from the IMIFA family", "topics": [ "get_IMIFA_results", "print.Results_IMIFA", "summary.Results_IMIFA" ] }, { "page": "gumbel_max", "title": "Simulate Cluster Labels from Unnormalised Log-Probabilities using the Gumbel-Max Trick", "topics": [ "gumbel_max" ] }, { "page": "heat_legend", "title": "Add a colour key legend to heatmap plots", "topics": [ "heat_legend" ] }, { "page": "IMIFA_news", "title": "Show the NEWS file", "topics": [ "IMIFA_news" ] }, { "page": "is.cols", "title": "Check for Valid Colours", "topics": [ "is.cols" ] }, { "page": "is.posi_def", "title": "Check Positive-(Semi)definiteness of a matrix", "topics": [ "is.posi_def" ] }, { "page": "Ledermann", "title": "Ledermann Bound", "topics": [ "Ledermann" ] }, { "page": "ltrgamma", "title": "Left Truncated Gamma Distributions", "topics": [ "exp_ltrgamma", "ltrgamma", "rltrgamma" ] }, { "page": "mat2cols", "title": "Convert a numeric matrix to colours", "topics": [ "mat2cols" ] }, { "page": "mcmc_IMIFA", "title": "Adaptive Gibbs Sampler for Nonparametric Model-based Clustering using models from the IMIFA family", "topics": [ "mcmc_IMIFA", "print.IMIFA", "summary.IMIFA" ] }, { "page": "MGP_check", "title": "Check the validity of Multiplicative Gamma Process (MGP) hyperparameters", "topics": [ "MGP_check" ] }, { "page": "mgpControl", "title": "Control settings for the MGP prior and AGS for infinite factor models", "topics": [ "mgpControl" ] }, { "page": "mixfaControl", "title": "Control settings for the IMIFA family of factor analytic mixtures", "topics": [ "mixfaControl" ] }, { "page": "olive", "title": "Fatty acid composition of Italian olive oils", "topics": [ "olive" ] }, { "page": "pareto_scale", "title": "Pareto Scaling", "topics": [ "pareto_scale" ] }, { "page": "PGMM_dfree", "title": "Estimate the Number of Free Parameters in Finite Factor Analytic Mixture Models (PGMM)", "topics": [ "PGMM_dfree" ] }, { "page": "plot_cols", "title": "Plots a matrix of colours", "topics": [ "plot_cols" ] }, { 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mean image", "topics": [ "show_IMIFA_digit" ] }, { "page": "sim_IMIFA", "title": "Simulate Data from a Mixture of Factor Analysers Structure", "topics": [ "sim_IMIFA", "sim_IMIFA_data", "sim_IMIFA_model" ] }, { "page": "storeControl", "title": "Set storage values for use with the IMIFA family of models", "topics": [ "storeControl" ] }, { "page": "USPSdigits", "title": "USPS handwritten digits", "topics": [ "USPSdigits" ] }, { "page": "Zsimilarity", "title": "Summarise MCMC samples of clustering labels with a similarity matrix and find the 'average' clustering", "topics": [ "Zsimilarity" ] } ], "_readme": "https://github.com/keefe-murphy/imifa/raw/HEAD/README.md", "_rundeps": [ "BH", "matrixStats", "mclust", "mvnfast", "Rcpp", "RcppArmadillo", "RcppParallel", "Rfast", "slam", "viridisLite", "zigg" ], "_vignettes": [ { "source": "IMIFA.Rmd", "filename": "IMIFA.html", "title": "IMIFA: Infinite Mixtures of Infinite Factor Analysers and Related Models", "author": "Keefe Murphy", "engine": 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