{ "_id": "6a49ce491b0c6c282ca7d507", "Package": "bifrost", "Title": "Branch-Level Inference Framework for Recognizing Optimal Shifts\nin Traits", "Version": "0.1.4", "Authors@R": "c(\nperson(given = c(\"Jacob\", \"S.\"), family = \"Berv\", email = \"jacob.berv@gmail.com\", role = c(\"aut\", \"cre\", \"cph\", \"fnd\"), comment = c(ORCID = \"0000-0002-5962-0621\")),\nperson(given = \"Nathan\", family = \"Fox\", role = \"aut\", comment = c(ORCID = \"0000-0002-2816-9751\")),\nperson(given = c(\"Matt\", \"J.\"), family = \"Thorstensen\", role = \"aut\", comment = c(ORCID = \"0000-0002-7870-3369\")),\nperson(given = \"Henry\", family = \"Lloyd-Laney\", role = \"aut\", comment = c(ORCID = \"0000-0003-4650-8937\")),\nperson(given = c(\"Emily\", \"M.\"), family = \"Troyer\", role = \"aut\", comment = c(ORCID = \"0000-0001-7478-2306\")),\nperson(given = c(\"Rafael\", \"A.\"), family = \"Rivero-Vega\", role = \"aut\", comment = c(ORCID = \"0000-0001-5937-6377\")),\nperson(given = c(\"Stephen\", \"A.\"), family = \"Smith\", role = c(\"aut\", \"fnd\"), comment = c(ORCID = \"0000-0003-2035-9531\")),\nperson(given = \"Matt\", family = \"Friedman\", role = c(\"aut\", \"fnd\"), comment = c(ORCID = \"0000-0002-0114-7384\")),\nperson(given = c(\"David\", \"F.\"), family = \"Fouhey\", role = c(\"aut\", \"fnd\"), comment = c(ORCID = \"0000-0001-5028-5161\")),\nperson(given = c(\"Brian\", \"C.\"), family = \"Weeks\", role = c(\"aut\", \"fnd\"), comment = c(ORCID = \"0000-0003-2967-2970\")))", "Description": "Methods for detecting and visualizing cladogenic shifts in\nmultivariate trait data on phylogenies. Implements\npenalized-likelihood multivariate generalized least squares\nmodels, enabling analyses of high-dimensional trait datasets\nand large trees via searchOptimalConfiguration(). Includes a\ngreedy step-wise shift-search algorithm following approaches\ndeveloped in Smith et al. (2023) and\nBerv et al. (2024) . Methods build\non multivariate GLS approaches described in Clavel et al.\n(2019) and implemented in the\nmvgls() function from the 'mvMORPH' package. Documentation and\nvignettes are available at ,\nincluding worked examples for the jaw-shape dataset.", "License": "GPL (>= 2)", "Encoding": "UTF-8", "RoxygenNote": "7.3.3", "URL": "https://jakeberv.com/bifrost/, https://github.com/jakeberv/bifrost", "BugReports": "https://github.com/jakeberv/bifrost/issues", "VignetteBuilder": "knitr", "Config/testthat/edition": "3", "Config/testthat/parallel": "false", "Language": "en-US", "NeedsCompilation": "no", "Packaged": { "Date": "2026-06-16 08:50:11 UTC", "User": "root" }, "Author": "Jacob S. Berv [aut, cre, cph, fnd] (ORCID:\n), Nathan Fox [aut]\n(ORCID: ), Matt J.\nThorstensen [aut] (ORCID:\n), Henry Lloyd-Laney\n[aut] (ORCID: ), Emily\nM. Troyer [aut] (ORCID:\n), Rafael A. Rivero-Vega\n[aut] (ORCID: ), Stephen\nA. Smith [aut, fnd] (ORCID:\n), Matt Friedman [aut,\nfnd] (ORCID: ), David F.\nFouhey [aut, fnd] (ORCID:\n), Brian C. Weeks [aut,\nfnd] (ORCID: )", "Maintainer": "Jacob S. 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