{ "_id": "6a1f2eceb401979e73426b94", "Package": "codaredistlm", "Type": "Package", "Title": "Compositional Data Linear Models with Composition Redistribution", "Version": "0.1.0", "Date": "2022-12-22", "Authors@R": "c(\nperson(\"Ty\", \"Stanford\", email = \"tystan@gmail.com\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0002-8570-5493\")),\nperson(\"Charlotte\", \"Lund Rasmussen\", email = \"chinehade@gmail.com\", role = \"aut\", comment = c(ORCID = \"0000-0003-2193-5019\")),\nperson(\"Dot\", \"Dumuid\", email = \"dot.dumuid@unisa.edu.au\", role = \"aut\", comment = c(ORCID = \"0000-0003-3057-0963\")))", "Description": "Provided data containing an outcome variable,\ncompositional variables and additional covariates (optional);\nlinearly regress the outcome variable on an isometric log ratio\n(ilr) transformation of the linearly dependent compositional\nvariables. The package provides predictions (with confidence\nintervals) in the change (delta) in the outcome/response\nvariable based on the multiple linear regression model and\nevenly spaced reallocations of the compositional values. The\ncompositional data analysis approach implemented is outlined in\nDumuid et al. (2017a) and Dumuid\net al. (2017b) .", "License": "GPL-2", "URL": "https://github.com/tystan/codaredistlm", "BugReports": "https://github.com/tystan/codaredistlm/issues", "Encoding": "UTF-8", "LazyData": "true", "RoxygenNote": "7.1.2", "Config/pak/sysreqs": "libicu-dev", "Repository": "https://tystan.r-universe.dev", "Date/Publication": "2023-01-25 06:26:11 UTC", "RemoteUrl": "https://github.com/tystan/codaredistlm", "RemoteRef": "HEAD", "RemoteSha": "58879e1e129456e0ee93d169f71313436aecc19d", "NeedsCompilation": "no", "Packaged": { "Date": "2026-05-15 09:19:46 UTC", "User": "root" }, "Author": "Ty Stanford [aut, cre] (ORCID: ),\nCharlotte Lund Rasmussen [aut] (ORCID:\n),\nDot Dumuid [aut] (ORCID: )", "Maintainer": "Ty Stanford ", "MD5sum": "ca6054f9c1eff0062c86c595f4ae44ec", "_user": "tystan", "_type": "src", "_file": "codaredistlm_0.1.0.tar.gz", "_fileid": "795647e1b1f3ef484a4a33692076a09aee28c81d022c2553fbe1cecc16afa261", "_filesize": 256971, "_sha256": "795647e1b1f3ef484a4a33692076a09aee28c81d022c2553fbe1cecc16afa261", "_created": "2026-05-15T09:19:46.000Z", "_published": "2026-06-02T19:28:14.079Z", "_distro": "noble", "_jobs": [ { "job": 79154504006, "time": 144, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "7013948883" }, { "job": 79154504720, "time": 161, "config": "linux-release-x86_64", "r": "4.6.0", "check": "OK", "artifact": "7013953686" }, { "job": 79154504666, "time": 163, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "7013947317" }, { "job": 79154504368, "time": 177, "config": "macos-release-arm64", "r": "4.6.0", "check": "OK", "artifact": "7013949148" }, { "job": 79154504085, "time": 231, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "7013906449" }, { "job": 79154503463, "time": 118, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7367751827" }, { "job": 79154504217, "time": 124, "config": "windows-devel", "r": "4.7.0", "check": "OK", "artifact": "7013943415" }, { "job": 79154504444, "time": 91, "config": "windows-oldrel", "r": "4.5.3", "check": "OK", "artifact": "7013933718" }, { "job": 79154504162, "time": 316, "config": "windows-release", "r": "4.6.0", "check": "OK", "artifact": "7014000060" } ], "_buildurl": "https://github.com/r-universe/tystan/actions/runs/25910081660", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/tystan/codaredistlm", "_commit": { "id": "58879e1e129456e0ee93d169f71313436aecc19d", "author": "Ty Stanford ", "committer": "GitHub ", "message": "Comp mean discussion edit", "time": 1674627971 }, "_maintainer": { "name": "Ty Stanford", "email": "tystan@gmail.com", "login": "tystan", "uuid": 12855431, "orcid": "0000-0002-8570-5493" }, "_registered": true, "_dependencies": [ { "package": "compositions", "role": "Imports" }, { "package": "ggplot2", "role": "Imports" }, { "package": "broom", "role": "Imports" }, { "package": "knitr", "role": "Imports" }, { "package": "testthat", "role": "Suggests" } ], "_owner": "tystan", "_selfowned": true, "_usedby": 0, "_updates": [], "_tags": [], "_topics": [ "coda", "compositional-data-analysis", "isometric-log-ratio", "multiple-linear-regression", "plotting", "prediction" ], "_stars": 10, "_contributors": [ { "user": "tystan", "count": 7, "uuid": 12855431 }, { "user": "drlundrasmussen", "count": 1, "uuid": 45944449 } ], "_userbio": { "uuid": 12855431, "type": "user", "name": "Ty Stanford", "description": "(Bio)statistician" }, "_downloads": { "count": 226, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/codaredistlm" }, "_devurl": "https://github.com/tystan/codaredistlm", "_searchresults": 9, "_rbuild": "4.6.0", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/codaredistlm.html", "extra/contents.json", "extra/readme.html", "extra/readme.md", "manual.pdf" ], "_homeurl": "https://github.com/tystan/codaredistlm", "_realowner": "tystan", "_cranurl": true, "_releases": [ { "version": "0.1.0", "date": "2022-12-22" } ], "_exports": [ "plot_delta_comp", "predict_delta_comps" ], "_datasets": [ { "name": "fairclough", "title": "Data from Fairclough (2017). Fitness, fatness and the reallocation of time between children's daily movement behaviours: an analysis of compositional data", "object": "fairclough", "class": [ "data.frame" ], "fields": [ "child_id", "school", "sex", "decimal_age", "imd_decile", "height", "mass", "bmi", "z_bmi", "itof_grade", "waist_circ", "whtr", "shuttles_20m", "wear_time", "sed", "lpa", "mpa", "vpa", "mvpa", "sleep", "min_in_day" ], "rows": 169, "table": true, "tojson": true }, { "name": "fat_data", "title": "Randomly generated data to simulate child fat percentage regressed on time-use compositional data", "object": "fat_data", "class": [ "data.frame" ], "fields": [ "fat", "sl", "sb", "lpa", "mvpa", "sibs", "parents", "ed" ], "rows": 100, "table": true, "tojson": true } ], "_help": [ { "page": "append_ilr_coords", "title": "Add ILR coordinates to a data.frame containing composition variables", "topics": [ "append_ilr_coords" ] }, { "page": "check_input_args", "title": "Sanity checks for arguments passed to predict_delta_comps()", "topics": [ "check_input_args" ] }, { "page": "check_strictly_positive_vals", "title": "Check if compositional variable are strictly greater than 0", "topics": [ "check_strictly_positive_vals" ] }, { "page": "cols_exist", "title": "Check whether columns exist in a data.frame", "topics": [ "cols_exist" ] }, { "page": "compare_two_lm", "title": "Statistical test of the collective significance of the ilr variables", "topics": [ "compare_two_lm" ] }, { "page": "create_comparison_matrix", "title": "Creates row-wise perturbations of compositions from the mean composition", "topics": [ "create_comparison_matrix" ] }, { "page": "create_v_mat", "title": "Create ilr basis matrix (V)", "topics": [ "create_v_mat" ] }, { "page": "extract_lm_quantities", "title": "Extract critical quantities from a lm object (for confidence interval calculations)", "topics": [ "extract_lm_quantities" ] }, { "page": "fairclough", "title": "Data from Fairclough (2017). Fitness, fatness and the reallocation of time between children's daily movement behaviours: an analysis of compositional data", "topics": [ "fairclough" ] }, { "page": "fat_data", "title": "Randomly generated data to simulate child fat percentage regressed on time-use compositional data", "topics": [ "fat_data" ] }, { "page": "fit_lm", "title": "fit linear model based on input data.frame", "topics": [ "fit_lm" ] }, { "page": "is_deltacomp_obj", "title": "Is object that is returned from 'pred_delta_comps()'?", "topics": [ "is_deltacomp_obj" ] }, { "page": "is_lm_mod", "title": "Is object that is returned from 'lm()'?", "topics": [ "is_lm_mod" ] }, { "page": "is_null_or_na", "title": "Catch NULL, empty and objects containing NAs", "topics": [ "is_null_or_na" ] }, { "page": "plot_delta_comp", "title": "Plot redistributed time-use predictions from compositional ilr multiple linear regression model fit", "topics": [ "plot_delta_comp" ] }, { "page": "predict_delta_comps", "title": "Get predictions from compositional ilr multiple linear regression model", "topics": [ "predict_delta_comps" ] }, { "page": "print_ilr_trans", "title": "Print the ilr transformation of provided composition parts to console", "topics": [ "print_ilr_trans" ] } ], "_readme": "https://github.com/tystan/codaredistlm/raw/HEAD/README.md", "_rundeps": [ "backports", "bayesm", "broom", "cli", "compositions", "cpp11", "DEoptimR", "dplyr", "evaluate", "farver", "generics", "ggplot2", "glue", "gtable", "highr", "isoband", "knitr", "labeling", "lifecycle", "magrittr", "MASS", "pillar", "pkgconfig", "purrr", "R6", "RColorBrewer", "Rcpp", "RcppArmadillo", "rlang", "robustbase", "S7", "scales", "stringi", "stringr", "tensorA", "tibble", "tidyr", "tidyselect", "utf8", "vctrs", "viridisLite", "withr", "xfun", "yaml" ], "_score": 3.6989700043360187, "_indexed": true, "_nocasepkg": "codaredistlm", "_universes": [ "tystan" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "0.1.0", "date": "2026-05-15T09:21:56.000Z", "distro": "noble", "commit": "58879e1e129456e0ee93d169f71313436aecc19d", "fileid": "231e3dd2210519e734a95bfaad6423ed36aeb7c4e4061fbfb0d13340cdc02a0d", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/tystan/actions/runs/25910081660" }, { "r": "4.6.0", "os": "linux", "version": "0.1.0", "date": "2026-05-15T09:22:14.000Z", "distro": "noble", "commit": "58879e1e129456e0ee93d169f71313436aecc19d", "fileid": "2adfe87a6239dd7a6b9e180e48e91595b858ae25725d9c8d77247321a09152bf", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/tystan/actions/runs/25910081660" }, { "r": "4.5.3", "os": "mac", "version": "0.1.0", "date": "2026-05-15T09:22:04.000Z", "commit": "58879e1e129456e0ee93d169f71313436aecc19d", "fileid": "8c1ffa964ad1e7a1ca7a38f7f53c93a0404749fb01f1f6f4f46dd324921da5c9", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/tystan/actions/runs/25910081660" }, { "r": "4.6.0", "os": "mac", "version": "0.1.0", "date": "2026-05-15T09:22:01.000Z", "commit": "58879e1e129456e0ee93d169f71313436aecc19d", "fileid": "a4795141688dc07947ecdc92bf6afb59d722377faccbc1c518be7a263999eeee", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/tystan/actions/runs/25910081660" }, { "r": "4.7.0", "os": "win", "version": "0.1.0", "date": "2026-05-15T09:21:32.000Z", "commit": "58879e1e129456e0ee93d169f71313436aecc19d", "fileid": "7c7fd252e6a9ac959b1d465701ee4e31fe9f3871f541f0ee5d85235d56c89aa8", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/tystan/actions/runs/25910081660" }, { "r": "4.5.3", "os": "win", "version": "0.1.0", "date": "2026-05-15T09:21:00.000Z", "commit": "58879e1e129456e0ee93d169f71313436aecc19d", "fileid": "c143596415eae2e8fcfea5135e647749d17b0f25bea44668bebc79a5d20c34b5", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/tystan/actions/runs/25910081660" }, { "r": "4.6.0", "os": "win", "version": "0.1.0", "date": "2026-05-15T09:24:50.000Z", "commit": "58879e1e129456e0ee93d169f71313436aecc19d", "fileid": "301a576eb0dca73b3690bf3b1b8b1db613d6308588abc5494b99b0f3cca919e0", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/tystan/actions/runs/25910081660" }, { "r": "4.6.0", "os": "wasm", "version": "0.1.0", "date": "2026-06-02T19:27:56.000Z", "commit": "58879e1e129456e0ee93d169f71313436aecc19d", "fileid": "bb4c71b63ac33899a28a44625a4b295caf03162a8e06496ad8f4a4e14e6f2dac", "status": "success", "buildurl": "https://github.com/r-universe/tystan/actions/runs/25910081660" } ] }