{ "_id": "6a10469aacfb0bcc41c9eb8b", "Package": "sensiPhy", "Title": "Sensitivity Analysis for Comparative Methods", "Version": "0.8.5", "Date": "2020-03-31", "Authors@R": "c(\nperson(\"Gustavo\",\"Paterno\", email = \"paternogbc@gmail.com\", role = c(\"cre\",\"aut\")),\nperson(\"Gijsbert\", \"Werner\", email = \"gijsbert.werner@zoo.ox.ac.uk\", role = \"aut\"),\nperson(\"Caterina\", \"Penone\", email = \"caterina.penone@gmail.com\", role = \"aut\"),\nperson(\"Pablo\", \"Martinez\", email = \"pablo_sc82@hotmail.com\", role = \"ctb\"))", "Maintainer": "Gustavo Paterno ", "Description": "An implementation of sensitivity analysis for phylogenetic\ncomparative methods. The package is an umbrella of statistical\nand graphical methods that estimate and report different types\nof uncertainty in PCM: (i) Species Sampling uncertainty (sample\nsize; influential species and clades). (ii) Phylogenetic\nuncertainty (different topologies and/or branch lengths). (iii)\nData uncertainty (intraspecific variation and measurement\nerror).", "License": "GPL-2", "URL": "https://github.com/paternogbc/sensiPhy", "BugReports": "https://github.com/paternogbc/sensiPhy/issues", "LazyData": "true", "RoxygenNote": "7.1.0", "VignetteBuilder": "knitr", "Config/pak/sysreqs": "libglpk-dev make libxml2-dev", "Repository": "https://phylotastic.r-universe.dev", "Date/Publication": "2020-06-10 17:51:49 UTC", "RemoteUrl": "https://github.com/paternogbc/sensiPhy", "RemoteRef": "HEAD", "RemoteSha": "e20b0003f9b9d8c98786afc6772f83f16f5d7c07", "NeedsCompilation": "no", "Packaged": { "Date": "2026-05-10 18:08:51 UTC", "User": "root" }, "Author": "Gustavo Paterno [cre, aut],\nGijsbert Werner [aut],\nCaterina Penone [aut],\nPablo Martinez [ctb]", "MD5sum": "680ab8021fab142f76bcdd6c96948e02", "_user": "phylotastic", "_type": "src", "_file": "sensiPhy_0.8.5.tar.gz", "_fileid": "31bca78187eff78ae9846ad5b4186ae4088db2b66034048f3c03d21f7f3c9ea0", "_filesize": 1111511, 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"subplex", "vctrs", "viridisLite", "withr" ], "_vignettes": [ { "source": "sensiPhy_vignette.Rmd", "filename": "sensiPhy_vignette.html", "title": "sensiPhy: R-package for sensitivity analysis in phylogenetic comparative methods.", "author": "Gustavo Paterno, Caterina Penone, Gijsbert Werner", "engine": "knitr::rmarkdown", "headings": [ "1. Sampling uncertainty", "1.1 Sensitivity analysis for influential species", "1.1.1 influ_phylm(): Phylogenetic linear regression", "1.1.2. influ_physig(): Phylogenetic signal", "1.1.3 influ_continuous() and influ_discrete: Trait Evolution Continuous and Discrete Characters", "1.2. Sensitivity analysis for influential clades", "1.2.1 clade_phylm(): Phylogenetic linear regression", "1.2.2 clade_physig(): Phylogenetic signal", "1.2.3 clade_continuous() and clade_discrete: Trait Evolution Continuous and Discrete Characters", "1.3. Sensitivity analysis for sample size", "1.3.1 samp_phylm: Phylogenetic Linear regression", "1.3.2 samp_physig: Phylogenetic signal (k or lambda)", "1.3.3 samp_continuous() and samp_discrete: Trait Evolution Continuous and Discrete Characters", "2. Phylogenetic uncertainty", "2.1 tree_phylm: tree method for phylogenetic linear regression", "2.2 tree_physig(): tree method for phylogenetic signal", "2.3 tree_continuous() and tree_discrete: tree method for trait evolution of continuous and discrete characters", "3. Data uncertainty", "3.1 intra_phylm(): intra method for phylogenetic linear regression", "3.2 intra_physig(): intra method for phylogenetic signal", "4. Interacting uncertainties", "Examples:", "4.1 tree_influ_phylm(): tree_influ method for phylogenetic linear regression", "4.2 tree_clade_phylm(): tree_clade method for phylogenetic linear regression", "4.3 tree_samp_phylm(): tree_samp method for phylogenetic linear regression", "4.4 tree_intra_phylm(): tree_intra method for phylogenetic linear regression", "5. Additional functions", "5.1 Combine data and phylogeny", "5.2 Phylogenetic signal for missing data", "Background", "Example:", "5.3 Diversification and speciation rates", "6. Using sensiPhy with other packages (caper, phytools, gls)", "6.1 PGLS regression", "6.2 phylogenetic signal", "7. How long does it take?", "8. How to support sensiPhy", "8.1 Report bugs or errors", "8.2 Small changes in sensiPhy documentation", "8.3 Contribute with code", "8.4 New ideas or suggestions?", "8.5 Code of Conduct" ], "created": "2017-12-08 00:29:19", "modified": "2019-12-10 18:15:05", "commits": 7 } ], "_score": 6.445604203273597, "_indexed": false, "_nocasepkg": "sensiphy", "_universes": [ "phylotastic" ], "_indexurl": "https://paternogbc.r-universe.dev/sensiPhy", "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "0.8.5", "date": "2026-05-10T18:11:25.000Z", "distro": "noble", "commit": "e20b0003f9b9d8c98786afc6772f83f16f5d7c07", "fileid": "fdc72c9df9a5f8b36e5a132b32525c92e491c7cbba173c5e934cd749f8b1f08f", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/phylotastic/actions/runs/25635897557" }, { "r": "4.6.0", "os": "linux", "version": "0.8.5", "date": "2026-05-10T18:11:26.000Z", "distro": "noble", "commit": "e20b0003f9b9d8c98786afc6772f83f16f5d7c07", "fileid": "a549956faa34fa1f77609d64befc5b940b8f24792324c46e022d0c3fc5b74981", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/phylotastic/actions/runs/25635897557" }, { "r": "4.5.3", "os": "mac", "version": "0.8.5", "date": "2026-05-10T18:10:49.000Z", "commit": "e20b0003f9b9d8c98786afc6772f83f16f5d7c07", "fileid": "14992147abb1e41adf6afdd725c094cfaad8bb41e708365f59ec38a0179b5608", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/phylotastic/actions/runs/25635897557" }, { "r": "4.6.0", "os": "mac", "version": "0.8.5", "date": "2026-05-10T18:10:44.000Z", "commit": "e20b0003f9b9d8c98786afc6772f83f16f5d7c07", "fileid": "4cf076a4118f79608adedbc0e33209063ae96106bd273962bf69d83c9738eedd", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/phylotastic/actions/runs/25635897557" }, { "r": "4.7.0", "os": "win", "version": "0.8.5", "date": "2026-05-10T18:10:36.000Z", "commit": "e20b0003f9b9d8c98786afc6772f83f16f5d7c07", "fileid": "e0475f3db3a408f894779bb78e6cce4d74a2960fe36bbd91775150f7c1b8bf92", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/phylotastic/actions/runs/25635897557" }, { "r": "4.5.3", "os": "win", "version": "0.8.5", "date": "2026-05-10T18:10:19.000Z", "commit": "e20b0003f9b9d8c98786afc6772f83f16f5d7c07", "fileid": "97dece7137d1184f12a6b57821eaae2c4fa2a4260447be5d858f9ed29963959d", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/phylotastic/actions/runs/25635897557" }, { "r": "4.6.0", "os": "win", "version": "0.8.5", "date": "2026-05-10T18:10:37.000Z", "commit": "e20b0003f9b9d8c98786afc6772f83f16f5d7c07", "fileid": "a5cd7015a68844e484b371d9d1909bff4d22025eee851eadc205bb3075e2fc49", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/phylotastic/actions/runs/25635897557" }, { "r": "4.6.0", "os": "wasm", "version": "0.8.5", "date": "2026-05-22T12:05:18.000Z", "commit": "e20b0003f9b9d8c98786afc6772f83f16f5d7c07", "fileid": "c75d3c8e1a79a935d81da25dd38f744249d02a3d7d9293d720cf3105f8aa6bf0", "status": "success", "buildurl": "https://github.com/r-universe/phylotastic/actions/runs/25635897557" } ] }