{ "_id": "6a1ace9b1d7bb097a09dfe94", "Package": "ggtree", "Type": "Package", "Title": "an R package for visualization of tree and annotation data", "Version": "4.3.0", "Authors@R": "c(\nperson(\"Guangchuang\", \"Yu\", email = \"guangchuangyu@gmail.com\", role = c(\"aut\", \"cre\", \"cph\"),\ncomment = c(ORCID = \"0000-0002-6485-8781\")),\nperson(\"Tommy Tsan-Yuk\", \"Lam\", email = \"tylam.tommy@gmail.com\", role = c(\"aut\", \"ths\")),\nperson(\"Shuangbin\", \"Xu\", email = \"xshuangbin@163.com\", role = \"aut\",\ncomment = c(ORCID=\"0000-0003-3513-5362\")),\nperson(\"Lin\", \" Li\", email = \"williamlee2220@qq.com\", role = \"ctb\"),\nperson(\"Bradley\", \"Jones\", email = \"bjones@cfenet.ubc.ca\", role = \"ctb\"),\nperson(\"Justin\", \"Silverman\", email = \"jsilve24@gmail.com\", role = \"ctb\"),\nperson(\"Watal M.\", \"Iwasaki\", email = \"heavy.watal@gmail.com\", role = \"ctb\"),\nperson(\"Yonghe\", \"Xia\", email = \"xiayh17@gmail.com\", role = \"ctb\"),\nperson(\"Ruizhu\", \"Huang\", email = \"ruizhuRH@gmail.com\", role = \"ctb\")\n)", "Maintainer": "Guangchuang Yu ", "Description": "'ggtree' extends the 'ggplot2' plotting system which\nimplemented the grammar of graphics. 'ggtree' is designed for\nvisualization and annotation of phylogenetic trees and other\ntree-like structures with their annotation data.", "VignetteBuilder": "knitr", "ByteCompile": "true", "Encoding": "UTF-8", "License": "Artistic-2.0", "URL": "https://www.amazon.com/Integration-Manipulation-Visualization-Phylogenetic-Computational-ebook/dp/B0B5NLZR1Z/\n(book),\nhttp://onlinelibrary.wiley.com/doi/10.1111/2041-210X.12628\n(paper)", "BugReports": "https://github.com/YuLab-SMU/ggtree/issues", "Packaged": { "Date": "2026-05-30 08:14:09 UTC", "User": "root" }, "biocViews": "Alignment, Annotation, Clustering, DataImport,\nMultipleSequenceAlignment, Phylogenetics, ReproducibleResearch,\nSoftware, Visualization", "RoxygenNote": "7.3.3", "Roxygen": "list(markdown = TRUE)", "Config/pak/sysreqs": "libcairo2-dev cmake libfontconfig1-dev\nlibfreetype6-dev make libicu-dev libpng-dev libuv1-dev", "Repository": "https://bioc.r-universe.dev", "Date/Publication": "2026-04-28 12:40:27 UTC", "RemoteUrl": "https://github.com/bioc/ggtree", "RemoteRef": "HEAD", "RemoteSha": "adec830cf032508604a9f541984b92c148c2bf88", "NeedsCompilation": "no", "Author": "Guangchuang Yu [aut, cre, cph] (ORCID:\n),\nTommy Tsan-Yuk Lam [aut, ths],\nShuangbin Xu [aut] (ORCID: ),\nLin Li [ctb],\nBradley Jones [ctb],\nJustin Silverman [ctb],\nWatal M. Iwasaki [ctb],\nYonghe Xia [ctb],\nRuizhu Huang [ctb]", "MD5sum": "87d04e03bb37e0e458fcab010bbcb8e9", "_user": "bioc", "_type": "src", "_file": "ggtree_4.3.0.tar.gz", "_fileid": "5b454d33ba9f991e9340169427ce89eb47fa34bc35fcf796f14fdad359d6c780", "_filesize": 663420, "_sha256": "5b454d33ba9f991e9340169427ce89eb47fa34bc35fcf796f14fdad359d6c780", "_created": "2026-05-30T08:14:09.000Z", "_published": "2026-05-30T11:48:43.747Z", "_jobs": [ { "job": 78635886513, "time": 182, "config": "bioc-checks", "r": "4.6.0", "check": "ERROR", "artifact": "7306765238" }, { "job": 78635886512, "time": 214, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "7306768505" }, { "job": 78635886511, "time": 217, "config": "linux-release-x86_64", "r": "4.6.0", "check": "OK", "artifact": "7306768768" }, { "job": 78635886516, "time": 164, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "7307954149" }, { "job": 78635886528, "time": 122, "config": "macos-release-arm64", "r": "4.6.0", "check": "OK", "artifact": "7307950887" }, { "job": 78635669309, "time": 253, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "7306747608" }, { "job": 78635886523, "time": 136, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7306760920" }, { "job": 78635886536, "time": 471, "config": "windows-devel", "r": "4.7.0", "check": "OK", "artifact": "7306792990" }, { "job": 78635886515, "time": 451, "config": "windows-oldrel", "r": "4.5.3", "check": "OK", "artifact": "7306791074" }, { "job": 78635886522, "time": 163, "config": "windows-release", "r": "4.6.0", "check": "OK", "artifact": "7306763470" } ], "_bioccheck": { "error": 1, "warning": 7, "note": 15 }, "_buildurl": "https://github.com/r-universe/bioc/actions/runs/26678889940", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/bioc/ggtree", "_commit": { "id": "adec830cf032508604a9f541984b92c148c2bf88", "author": "A Wokaty ", "committer": "A Wokaty ", "message": "bump x.y.z version to odd y following creation of RELEASE_3_23 branch\n", "time": 1777380027 }, "_maintainer": { "name": "Guangchuang Yu", "email": "guangchuangyu@gmail.com", "login": "guangchuangyu", "twitter": "@guangchuangyu", "description": "Professor of Bioinformatics at Southern Medical University.", "uuid": 626539, "orcid": "0000-0002-6485-8781" }, "_distro": "noble", "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 4.2.0", "role": "Depends" }, { "package": "ape", "role": "Imports" }, { "package": "aplot", "role": "Imports" }, { "package": "cli", "role": "Imports" }, { "package": "dplyr", "role": "Imports" }, { "package": "ggfun", "version": ">= 0.1.7", "role": "Imports" }, { "package": "ggiraph", "version": ">= 0.9.1", "role": "Imports" }, { "package": "ggplot2", "version": ">= 4.0.0", "role": "Imports" }, { "package": "grid", "role": "Imports" }, { "package": "magrittr", "role": "Imports" }, { "package": "methods", "role": "Imports" }, { "package": "purrr", "role": "Imports" }, { "package": "rlang", "role": "Imports" }, { "package": "scales", "role": "Imports" }, { "package": "stats", "role": "Imports" }, { "package": "tidyr", "role": "Imports" }, { "package": "tidytree", "version": ">= 0.4.5", "role": "Imports" }, { "package": "treeio", "version": ">= 1.8.0", "role": "Imports" }, { "package": "utils", "role": "Imports" }, { "package": "yulab.utils", "version": ">= 0.2.3", "role": "Imports" }, { "package": "emojifont", "role": "Suggests" }, { "package": "ggimage", "role": "Suggests" }, { "package": "ggplotify", "role": "Suggests" }, { "package": "shadowtext", "role": "Suggests" }, { "package": "grDevices", "role": "Suggests" }, { "package": "knitr", "role": "Suggests" }, { "package": "prettydoc", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" }, { "package": "igraph", "role": "Suggests" }, { "package": "testthat", "role": "Suggests" }, { "package": "tibble", "role": "Suggests" }, { "package": "glue", "role": "Suggests" }, { "package": "Biostrings", "role": "Suggests" } ], "_owner": "bioc", "_selfowned": true, "_usedby": 110, "_updates": [ { "week": "2025-28", "n": 4 }, { "week": "2025-38", "n": 5 }, { "week": "2025-42", "n": 3 }, { "week": "2025-43", "n": 3 }, { "week": "2025-44", "n": 7 }, { "week": "2025-49", "n": 1 }, { "week": "2025-51", "n": 8 }, { "week": "2026-02", "n": 3 }, { "week": "2026-03", "n": 2 }, { "week": "2026-11", "n": 4 }, { "week": "2026-12", "n": 1 }, { "week": "2026-13", "n": 1 }, { "week": "2026-15", "n": 1 }, { "week": "2026-18", "n": 2 } ], "_tags": [], "_bioc": [ { "branch": "devel", "version": "4.3.0", "bioc": "3.24" }, { "branch": "release", "version": "4.2.0", "bioc": "3.23" } ], "_topics": [ "alignment", "annotation", "clustering", "dataimport", "multiplesequencealignment", "phylogenetics", "reproducibleresearch", "software", "visualization", "annotations", "ggplot2", "phylogenetic-trees" ], "_stars": 927, "_contributors": [ { "user": "guangchuangyu", "count": 1312, "uuid": 626539 }, { "user": "xiangpin", "count": 191, "uuid": 17870644 }, { "user": "brj1", "count": 23, "uuid": 10039876 }, { "user": "jwokaty", "count": 16, "uuid": 1744257 }, { "user": "nturaga", "count": 14, "uuid": 2746443 }, { "user": "xiayh17", "count": 11, "uuid": 17431830 }, { "user": "bisaloo", "count": 10, "uuid": 10783929 }, { "user": "dtenenba", "count": 8, "uuid": 2286826 }, { "user": "matt-sd-watson", "count": 4, "uuid": 40243147 }, { "user": "jsilve24", "count": 3, "uuid": 452422 }, { "user": "abichat", "count": 3, "uuid": 30300749 }, { "user": "sanl20", "count": 3, "uuid": 75999371 }, { "user": "heavywatal", "count": 3, "uuid": 1431267 }, { "user": "vobencha", "count": 2, "uuid": 2466173 }, { "user": "fionarhuang", "count": 2, "uuid": 22393299 }, { "user": "xdamman", "count": 2, "uuid": 74358 }, { "user": "vmikk", "count": 2, "uuid": 7162120 }, { "user": "lpdagallier", "count": 2, "uuid": 38457679 }, { "user": "justgitting", "count": 2, "uuid": 6530017 }, { "user": "hpages", "count": 2, "uuid": 8810451 }, { "user": "kopperud", "count": 2, "uuid": 18629226 }, { "user": "bitdeli-chef", "count": 1, "uuid": 3092978 }, { "user": "jichengyang202301", "count": 1, "uuid": 17981888 }, { "user": "dawells", "count": 1, "uuid": 49305334 }, { "user": "gavin-kelly-1", "count": 1, "uuid": 1587213 }, { "user": "romainfrancois", "count": 1, "uuid": 2625526 }, { "user": "willgearty", "count": 1, "uuid": 7232514 }, { "user": "davidcerny", "count": 1, "uuid": 26754354 }, { "user": "jlingford", "count": 1, "uuid": 36560352 }, { "user": "yasche", "count": 1, "uuid": 172521093 } ], "_userbio": { "uuid": 2286807, "type": "organization", "name": "Bioconductor", "description": "Software for the analysis and comprehension of high-throughput genomic data" }, "_downloads": { "count": 45974, "source": "https://www.bioconductor.org/packages/stats/bioc/ggtree" }, "_mentions": 474, "_devurl": "https://github.com/yulab-smu/ggtree", "_searchresults": 7392, "_rbuild": "4.6.0", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/ggtree.html", "extra/NEWS.html", "extra/NEWS.txt", "extra/readme.html", "extra/readme.md", "manual.pdf" ], "_homeurl": "https://github.com/yulab-smu/ggtree", "_realowner": "bioc", "_cranurl": false, "_exports": [ "%+>%", "%<%", "%<+%", "%>%", "add_colorbar", "aes", "arrow", "as_tanglegram", "as_tanglegram.cophylo", "as_tanglegram.default", "as_tanglegram.tanglegram", "as.polytomy", "collapse", "Date2decimal", "decimal2Date", "expand", "facet_data", "facet_labeller", "facet_plot", "facet_widths", "flip", "fortify", "geom_aline", "geom_balance", "geom_cladelab", "geom_cladelabel", "geom_cladelabel2", "geom_facet", "geom_highlight", "geom_hilight", "geom_inset", "geom_label", "geom_label2", "geom_label2_interactive", "geom_motif", "geom_nodelab", "geom_nodelab2", "geom_nodepoint", "geom_point", "geom_point2", "geom_point2_interactive", "geom_range", "geom_rootedge", "geom_rootpoint", "geom_segment2", "geom_segment2_interactive", "geom_strip", "geom_striplab", "geom_tanglelink", "geom_taxalink", "geom_text", "geom_text2", "geom_text2_interactive", "geom_tiplab", "geom_tiplab2", "geom_tippoint", "geom_tree", "geom_tree2", "geom_treescale", "geom_zoom_clade", "GeomHilightEncircle", "GeomInteractiveCurvelink", "GeomInteractiveHilightEncircle", "GeomInteractiveHilightRect", "GeomInteractiveLabelGGtree", "GeomInteractivePointGGtree", "GeomInteractiveSegmentGGtree", "GeomInteractiveTextGGtree", "get_clade_position", "get_heatmap_column_position", "get_taxa_name", "get.path", "ggdensitree", "ggdoubletree", "ggexpand", "ggplot", "ggsave", "ggtree", "ggtree_set_interactive", "ggtree_unset_interactive", "gheatmap", "groupClade", "groupOTU", "guide_legend", "gzoom", "hexpand", "identify", "inset", "label_pad", "layout_circular", "layout_dendrogram", "layout_fan", "layout_inward_circular", "layout_rectangular", "margin", "MRCA", "msaplot", "multiplot", "nodebar", "nodeid", "nodelab", "nodepie", "open_tree", "plot_list", "range_format", "read.tree", "revts", "rotate", "rotate_tree", "rtree", "scale_color", "scale_color_manual", "scale_color_subtree", "scale_colour_manual", "scale_colour_subtree", "scale_fill_manual", "scale_x_continuous", "scale_x_ggtree", "scale_x_range", "scaleClade", "set_hilight_legend", "StatBalance", "td_filter", "td_mutate", "td_unnest", "theme", "theme_dendrogram", "theme_inset", "theme_tree", "theme_tree2", "unit", "vexpand", "viewClade", "xlim", "xlim_expand", "xlim_tree", "zoomClade" ], "_help": [ { "page": "add_TREEINFO", "title": "%+>%", "topics": [ "%+>%" ] }, { "page": "ggtree-format-painter", "title": "%<%", "topics": [ "%<%" ] }, { "page": "add_colorbar", "title": "add_colorbar", "topics": [ "add_colorbar" ] }, { "page": "applyLayoutDaylight", "title": "applyLayoutDaylight", "topics": [ "applyLayoutDaylight" ] }, { "page": "as_tanglegram", "title": "Coerce paired-tree inputs to a tanglegram", "topics": [ "as_tanglegram", "as_tanglegram.cophylo", "as_tanglegram.default", "as_tanglegram.tanglegram" ] }, { "page": "as.polytomy", "title": "as.polytomy", "topics": [ "as.polytomy" ] }, { "page": "collapse", "title": "collapse-ggtree", "topics": [ "collapse.ggtree" ] }, { "page": "Date2decimal", "title": "Date2decimal", "topics": [ "Date2decimal" ] }, { "page": "decimal2Date", "title": "decimal2Date", "topics": [ "decimal2Date" ] }, { "page": "expand", "title": "expand", "topics": [ "expand" ] }, { "page": "facet_data", "title": "facet_data", "topics": [ "facet_data" ] }, { "page": "facet_labeller", "title": "facet_labeller", "topics": [ "facet_labeller" ] }, { "page": "facet-plot", "title": "facet_plot", "topics": [ "facet_plot", "geom_facet" ] }, { "page": "facet_widths", "title": "facet_widths", "topics": [ "facet_widths" ] }, { "page": "flip", "title": "flip", "topics": [ "flip" ] }, { "page": "geom_aline", "title": "geom_aline", "topics": [ "geom_aline" ] }, { "page": "geom_balance", "title": "geom_balance", "topics": [ "geom_balance" ] }, { "page": "geom_cladelab", "title": "geom_cladelab", "topics": [ "geom_cladelab" ] }, { "page": "geom_cladelabel", "title": "geom_cladelabel", "topics": [ "geom_cladelabel" ] }, { "page": "geom_cladelabel2", "title": "geom_cladelabel2", "topics": [ "geom_cladelabel2" ] }, { "page": "geom-hilight", "title": "geom_hilight", "topics": [ "geom_highlight", "geom_hilight" ] }, { "page": "inset", "title": "geom_inset", "topics": [ "geom_inset", "inset" ] }, { "page": "geom_label2", "title": "geom_label2", "topics": [ "geom_label2" ] }, { "page": "geom_label2_interactive", "title": "Create interactive label of ggtree", "topics": [ "geom_label2_interactive" ] }, { "page": "geom_motif", "title": "geom_motif", "topics": [ "geom_motif" ] }, { "page": "geom_nodelab", "title": "geom_nodelab", "topics": [ "geom_nodelab" ] }, { "page": "geom_nodelab2", "title": "geom_nodelab2", "topics": [ "geom_nodelab2" ] }, { "page": "geom_nodepoint", "title": "geom_nodepoint", "topics": [ "geom_nodepoint" ] }, { "page": "geom_point2", "title": "geom_point2", "topics": [ "geom_point2" ] }, { "page": "geom_point2_interactive", "title": "Create interactive point of ggtree", "topics": [ "geom_point2_interactive" ] }, { "page": "geom_range", "title": "geom_range", "topics": [ "geom_range" ] }, { "page": "geom_rootedge", "title": "geom_rootedge", "topics": [ "geom_rootedge" ] }, { "page": "geom_rootpoint", "title": "geom_rootpoint", "topics": [ "geom_rootpoint" ] }, { "page": "geom_segment2", "title": "geom_segment2", "topics": [ "geom_segment2" ] }, { "page": "geom_segment2_interactive", "title": "Create interactive line segments of ggtree", "topics": [ "geom_segment2_interactive" ] }, { "page": "geom_strip", "title": "geom_strip", "topics": [ "geom_strip" ] }, { "page": "geom_striplab", "title": "geom_striplab", "topics": [ "geom_striplab" ] }, { "page": "geom_tanglelink", "title": "Link matching taxa across a paired tree view", "topics": [ "geom_tanglelink" ] }, { "page": "geom_taxalink", "title": "link between taxa", "topics": [ "geom_taxalink" ] }, { "page": "geom_text2", "title": "geom_text2", "topics": [ "geom_text2" ] }, { "page": "geom_text2_interactive", "title": "Create interactive text of ggtree", "topics": [ "geom_text2_interactive" ] }, { "page": "geom_tiplab", "title": "geom_tiplab", "topics": [ "geom_tiplab" ] }, { "page": "geom_tiplab2", "title": "geom_tiplab2", "topics": [ "geom_tiplab2" ] }, { "page": "geom_tippoint", "title": "geom_tippoint", "topics": [ "geom_tippoint" ] }, { "page": "geom_tree", "title": "geom_tree", "topics": [ "geom_tree" ] }, { "page": "geom_tree2", "title": "geom_tree2", "topics": [ "geom_tree2" ] }, { "page": "geom_treescale", "title": "geom_treescale", "topics": [ "geom_treescale" ] }, { "page": "geom_zoom_clade", "title": "geom_zoom_clade", "topics": [ "geom_zoom_clade" ] }, { "page": "GeomHilightEncircle", "title": "ggproto classes of ggtree", "topics": [ "GeomHilightEncircle" ] }, { "page": "GeomInteractiveCurvelink", "title": "ggproto classes for ggiraph", "topics": [ "GeomInteractiveCurvelink" ] }, { "page": "GeomInteractiveHilightEncircle", "title": "ggproto classes for ggiraph", "topics": [ "GeomInteractiveHilightEncircle" ] }, { "page": "GeomInteractiveHilightRect", "title": "ggproto classes for ggiraph", "topics": [ "GeomInteractiveHilightRect" ] }, { "page": "GeomInteractiveLabelGGtree", "title": "ggproto classes for ggiraph", "topics": [ "GeomInteractiveLabelGGtree" ] }, { "page": "GeomInteractivePointGGtree", "title": "ggproto classes for ggiraph", "topics": [ "GeomInteractivePointGGtree" ] }, { "page": "GeomInteractiveSegmentGGtree", "title": "ggproto classes for ggiraph", "topics": [ "GeomInteractiveSegmentGGtree" ] }, { "page": "GeomInteractiveTextGGtree", "title": "ggproto classes for ggiraph", "topics": [ "GeomInteractiveTextGGtree" ] }, { "page": "get_clade_position", "title": "get_clade_position", "topics": [ "get_clade_position" ] }, { "page": "get_heatmap_column_position", "title": "get_heatmap_column_position", "topics": [ "get_heatmap_column_position" ] }, { "page": "get_taxa_name", "title": "get_taxa_name", "topics": [ "get_taxa_name" ] }, { "page": "get.path", "title": "get.path", "topics": [ "get.path" ] }, { "page": "getNodeAngle.df", "title": "getNodeAngle.df", "topics": [ "getNodeAngle.df" ] }, { "page": "getNodesBreadthFirst.df", "title": "getNodesBreadthFirst.df", "topics": [ "getNodesBreadthFirst.df" ] }, { "page": "getSubtree", "title": "getSubtree", "topics": [ "getSubtree" ] }, { "page": "getSubtree.df", "title": "getSubtree.df", "topics": [ "getSubtree.df" ] }, { "page": "getSubtreeUnrooted", "title": "getSubtreeUnrooted", "topics": [ "getSubtreeUnrooted" ] }, { "page": "getSubtreeUnrooted.df", "title": "getSubtreeUnrooted", "topics": [ "getSubtreeUnrooted.df" ] }, { "page": "getTreeArcAngles", "title": "getTreeArcAngles", "topics": [ "getTreeArcAngles" ] }, { "page": "ggdensitree", "title": "ggdensitree", "topics": [ "ggdensitree" ] }, { "page": "ggdoubletree", "title": "Create a paired tree comparison plot", "topics": [ "ggdoubletree" ] }, { "page": "ggtree", "title": "ggtree", "topics": [ "ggtree" ] }, { "page": "ggtree_set_interactive", "title": "Set ggtree interactive mode", "topics": [ "ggtree_set_interactive" ] }, { "page": "ggtree_unset_interactive", "title": "Unset ggtree interactive mode", "topics": [ "ggtree_unset_interactive" ] }, { "page": "gheatmap", "title": "gheatmap", "topics": [ "gheatmap" ] }, { "page": "gzoom-methods", "title": "gzoom method", "topics": [ "gzoom", "gzoom,ggtree-method", "gzoom,phylo-method", "gzoom,treedata-method" ] }, { "page": "gzoom.phylo", "title": "gzoom", "topics": [ "gzoom.phylo" ] }, { "page": "ggexpand", "title": "hexpand", "topics": [ "ggexpand", "hexpand", "vexpand" ] }, { "page": "label_pad", "title": "Padding taxa labels", "topics": [ "label_pad" ] }, { "page": "tree-layout", "title": "layout_rectangular", "topics": [ "layout_circular", "layout_dendrogram", "layout_fan", "layout_inward_circular", "layout_rectangular" ] }, { "page": "layoutDaylight", "title": "Equal daylight layout method for unrooted trees.", "topics": [ "layoutDaylight" ] }, { "page": "layoutEqualAngle", "title": "layoutEqualAngle", "topics": [ "layoutEqualAngle" ] }, { "page": "layoutTreeAndLeaf", "title": "TreeAndLeaf-inspired unrooted layout.", "topics": [ "layoutTreeAndLeaf" ] }, { "page": "msaplot", "title": "msaplot", "topics": [ "msaplot" ] }, { "page": "multiplot", "title": "multiplot", "topics": [ "multiplot" ] }, { "page": "nodebar", "title": "nodebar", "topics": [ "nodebar" ] }, { "page": "nodepie", "title": "nodepie", "topics": [ "nodepie" ] }, { "page": "open_tree", "title": "open_tree", "topics": [ "open_tree" ] }, { "page": "range_format", "title": "range_format", "topics": [ "range_format" ] }, { "page": "revts", "title": "revts", "topics": [ "revts" ] }, { "page": "rotate", "title": "rotate", "topics": [ "rotate" ] }, { "page": "rotate_tree", "title": "rotate_tree", "topics": [ "rotate_tree" ] }, { "page": "rotateTreePoints", "title": "rotateTreePoints.data.frame", "topics": [ "rotateTreePoints.df" ] }, { "page": "scale_color-methods", "title": "scale_color method", "topics": [ "scale_color", "scale_color,phylo-method", "scale_color,treedata-method" ] }, { "page": "scale-color-subtree", "title": "scale_color_subtree", "topics": [ "scale_color_subtree", "scale_colour_subtree" ] }, { "page": "scale_x_ggtree", "title": "scale_x_ggtree", "topics": [ "scale_x_ggtree" ] }, { "page": "scale_x_range", "title": "scale_x_range", "topics": [ "scale_x_range" ] }, { "page": "scaleClade", "title": "scaleClade", "topics": [ "scaleClade" ] }, { "page": "set_hilight_legend", "title": "set_hilight_legend", "topics": [ "set_hilight_legend" ] }, { "page": "ggtree-ggproto", "title": "StatBalance", "topics": [ "StatBalance" ] }, { "page": "theme_dendrogram", "title": "theme_dendrogram", "topics": [ "theme_dendrogram" ] }, { "page": "theme_inset", "title": "theme_inset", "topics": [ "theme_inset" ] }, { "page": "theme_tree", "title": "theme_tree", "topics": [ "theme_tree" ] }, { "page": "theme_tree2", "title": "theme_tree2", "topics": [ "theme_tree2" ] }, { "page": "viewClade", "title": "viewClade", "topics": [ "viewClade" ] }, { "page": "xlim_expand", "title": "xlim_expand", "topics": [ "xlim_expand" ] }, { "page": "xlim_tree", "title": "xlim_tree", "topics": [ "xlim_tree" ] }, { "page": "zoomClade", "title": "zoomClade", "topics": [ "zoomClade" ] } ], "_readme": "https://github.com/bioc/ggtree/raw/HEAD/README.md", "_rundeps": [ "ape", "aplot", "base64enc", "bslib", "cachem", "cli", "cpp11", "digest", "dplyr", "evaluate", "farver", "fastmap", "fontawesome", "fontBitstreamVera", "fontLiberation", "fontquiver", "fs", "gdtools", "generics", "ggfun", "ggiraph", "ggplot2", "ggplotify", "glue", "gridGraphics", "gtable", "highr", "htmltools", "htmlwidgets", "isoband", "jquerylib", "jsonlite", "knitr", "labeling", "lattice", "lazyeval", "lifecycle", "magrittr", "MASS", "memoise", "mime", "nlme", "patchwork", "pillar", "pkgconfig", "purrr", "R6", "rappdirs", "RColorBrewer", "Rcpp", "rlang", "rmarkdown", "S7", "sass", "scales", "stringi", "stringr", "systemfonts", "tibble", "tidyr", "tidyselect", "tidytree", "tinytex", "treeio", "utf8", "vctrs", "viridisLite", "withr", "xfun", "yaml", "yulab.utils" ], "_vignettes": [ { "source": "ggtree.Rmd", "filename": "ggtree.html", "title": "ggtree: tree visualization and annotation", "author": "Guangchuang Yu School of Basic Medical Sciences, Southern Medical University", "engine": "knitr::rmarkdown", "headings": [ "Vignette", "Citation", "Need helps?" ], "created": "2015-01-14 21:22:07", "modified": "2020-09-14 02:14:03", "commits": 81 } ], "_score": 17.32436396163677, "_indexed": true, "_nocasepkg": "ggtree", "_universes": [ "bioc", "guangchuangyu", "yulab-smu" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "4.3.0", "date": "2026-05-30T08:17:06.000Z", "distro": "noble", "commit": "adec830cf032508604a9f541984b92c148c2bf88", "fileid": "5059be30aff16c0d922cb3b2e0dffbd3f398976ac82ce77b872dae859b122b1f", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678889940" }, { "r": "4.6.0", "os": "linux", "version": "4.3.0", "date": "2026-05-30T08:17:10.000Z", "distro": "noble", "commit": "adec830cf032508604a9f541984b92c148c2bf88", "fileid": "3eb200daac1c29715365e714691f2f14ffa7d6f5839a92b74aae228761696e26", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678889940" }, { "r": "4.5.3", "os": "mac", "version": "4.3.0", "date": "2026-05-30T11:47:20.000Z", "commit": "adec830cf032508604a9f541984b92c148c2bf88", "fileid": "d4a42da0a37293cc4cead4de410ff61486ad184701f2b149cf4cd76cd1728f92", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678889940" }, { "r": "4.6.0", "os": "mac", "version": "4.3.0", "date": "2026-05-30T11:46:59.000Z", "commit": "adec830cf032508604a9f541984b92c148c2bf88", "fileid": "ce63a60c8160b827b0120784f7824a9b2f40f969601c7c8f9ceded36af051da4", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678889940" }, { "r": "4.6.0", "os": "wasm", "version": "4.3.0", "date": "2026-05-30T08:16:55.000Z", "commit": "adec830cf032508604a9f541984b92c148c2bf88", "fileid": "6652b69157e869322edad41e53ca6c76f68120473a2c31ecc812082d000a1fab", "status": "success", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678889940" }, { "r": "4.7.0", "os": "win", "version": "4.3.0", "date": "2026-05-30T08:21:08.000Z", "commit": "adec830cf032508604a9f541984b92c148c2bf88", "fileid": "51fb500c8bb98c696a7f6a4013cc02019110f13d9351bd6f19cc93ae92c2f954", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678889940" }, { "r": "4.5.3", "os": "win", "version": "4.3.0", "date": "2026-05-30T08:20:48.000Z", "commit": "adec830cf032508604a9f541984b92c148c2bf88", "fileid": "e7c8fbc50a0071a52e34a64ae41f91796568a018f11e46730df1aab8711fd05f", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678889940" }, { "r": "4.6.0", "os": "win", "version": "4.3.0", "date": "2026-05-30T08:15:50.000Z", "commit": "adec830cf032508604a9f541984b92c148c2bf88", "fileid": "5fbcbb7ad609514d7906237360cb1f247dd25947ab902849a73e5fa10af770ff", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678889940" } ] }