NAMESPACE
f1f0d8d2
 # Generated by roxygen2: do not edit by hand
d32146c6
 
 S3method(as.binary,phylo)
 S3method(as.data.frame,phylo)
858ecfa1
 S3method(as.data.frame,treedata)
d32146c6
 S3method(fortify,beast)
 S3method(fortify,codeml)
 S3method(fortify,codeml_mlc)
 S3method(fortify,hyphy)
1d4d2daf
 S3method(fortify,jplace)
75f08f2b
 S3method(fortify,multiPhylo)
86ac6e80
 S3method(fortify,obkData)
d32146c6
 S3method(fortify,paml_rst)
f1f0d8d2
 S3method(fortify,phangorn)
6f076280
 S3method(fortify,phylip)
d32146c6
 S3method(fortify,phylo)
 S3method(fortify,phylo4)
9d991643
 S3method(fortify,phylo4d)
90df068e
 S3method(fortify,phyloseq)
75f08f2b
 S3method(fortify,r8s)
858ecfa1
 S3method(fortify,treedata)
9e9bcff3
 S3method(identify,gg)
47fa1dcf
 S3method(print,beastList)
90c9d156
 export("%+>%")
d32146c6
 export("%<%")
 export("%<+%")
5d30482f
 export("%>%")
d32146c6
 export(.)
75f08f2b
 export(Date2decimal)
9a1c4d17
 export(GeomHilight)
f1f0d8d2
 export(MRCA)
13e3fd30
 export(StatBalance)
f1f0d8d2
 export(StatHilight)
1d4d2daf
 export(add_colorbar)
bc33be17
 export(annotation_image)
f1f0d8d2
 export(apeBoot)
d32146c6
 export(as.binary)
215c8da9
 export(as.polytomy)
3b74a5b0
 export(collapse)
75f08f2b
 export(decimal2Date)
10504458
 export(download.phylopic)
3b74a5b0
 export(expand)
90c9d156
 export(facet_plot)
f451aabc
 export(flip)
d32146c6
 export(geom_aline)
13e3fd30
 export(geom_balance)
f1f0d8d2
 export(geom_cladelabel)
9a1c4d17
 export(geom_cladelabel2)
f1f0d8d2
 export(geom_hilight)
9a1c4d17
 export(geom_hilight_encircle)
f35d40fd
 export(geom_label2)
363c0555
 export(geom_motif)
14435e79
 export(geom_nodepoint)
f1f0d8d2
 export(geom_point2)
5971a628
 export(geom_range)
14435e79
 export(geom_rootpoint)
f1f0d8d2
 export(geom_segment2)
0f93c46a
 export(geom_strip)
f4913932
 export(geom_taxalink)
f1f0d8d2
 export(geom_text2)
d32146c6
 export(geom_tiplab)
9b8b0e98
 export(geom_tiplab2)
d32146c6
 export(geom_tippoint)
 export(geom_tree)
90df068e
 export(geom_tree2)
f1f0d8d2
 export(geom_treescale)
b2b46fb5
 export(get.offspring.tip)
b11ca60a
 export(get.path)
c5822d81
 export(get.phylopic)
13e3fd30
 export(get_balance_position)
f1f0d8d2
 export(get_clade_position)
 export(get_heatmap_column_position)
f451aabc
 export(get_taxa_name)
d32146c6
 export(ggtree)
63c430bc
 export(gheatmap)
b2b46fb5
 export(gzoom)
245479db
 export(inset)
2d259d29
 export(msaplot)
90df068e
 export(multiplot)
245479db
 export(nodebar)
84e78228
 export(nodeid)
245479db
 export(nodepie)
fded823a
 export(open_tree)
5d30482f
 export(phylopic)
8a63a407
 export(reroot)
90df068e
 export(rescale_tree)
718f3b75
 export(revts)
f451aabc
 export(rotate)
fded823a
 export(rotate_tree)
3f8046ea
 export(scaleClade)
1d4d2daf
 export(scale_color)
4f149da4
 export(scale_x_ggtree)
f25c1cdd
 export(set_hilight_legend)
13e3fd30
 export(stat_balance)
f1f0d8d2
 export(stat_hilight)
6cb61e1d
 export(subview)
245479db
 export(theme_inset)
6cb61e1d
 export(theme_transparent)
d32146c6
 export(theme_tree)
 export(theme_tree2)
86ac6e80
 export(viewClade)
aed6d1a0
 export(xlim_expand)
612da065
 export(xlim_tree)
3b74a5b0
 exportMethods(groupClade)
b2b46fb5
 exportMethods(groupOTU)
1be2c982
 exportMethods(gzoom)
8a63a407
 exportMethods(reroot)
1d4d2daf
 exportMethods(scale_color)
215c8da9
 importFrom(ape,di2multi)
d32146c6
 importFrom(ape,extract.clade)
f1f0d8d2
 importFrom(ape,getMRCA)
d32146c6
 importFrom(ape,is.binary.tree)
 importFrom(ape,ladderize)
 importFrom(ape,read.tree)
 importFrom(ape,reorder.phylo)
 importFrom(ape,write.tree)
9a1c4d17
 importFrom(ggplot2,Geom)
f4913932
 importFrom(ggplot2,GeomCurve)
f35d40fd
 importFrom(ggplot2,GeomLabel)
f1f0d8d2
 importFrom(ggplot2,GeomPoint)
 importFrom(ggplot2,GeomRect)
 importFrom(ggplot2,GeomSegment)
 importFrom(ggplot2,GeomText)
 importFrom(ggplot2,Stat)
d32146c6
 importFrom(ggplot2,aes)
f1f0d8d2
 importFrom(ggplot2,aes_)
d32146c6
 importFrom(ggplot2,aes_string)
 importFrom(ggplot2,annotate)
10504458
 importFrom(ggplot2,annotation_custom)
65bd00ea
 importFrom(ggplot2,coord_cartesian)
d32146c6
 importFrom(ggplot2,coord_flip)
 importFrom(ggplot2,coord_polar)
f1f0d8d2
 importFrom(ggplot2,draw_key_path)
 importFrom(ggplot2,draw_key_point)
 importFrom(ggplot2,draw_key_text)
d32146c6
 importFrom(ggplot2,element_blank)
 importFrom(ggplot2,element_line)
 importFrom(ggplot2,element_rect)
90c9d156
 importFrom(ggplot2,facet_grid)
d32146c6
 importFrom(ggplot2,fortify)
245479db
 importFrom(ggplot2,geom_bar)
6133057c
 importFrom(ggplot2,geom_blank)
2d259d29
 importFrom(ggplot2,geom_rect)
d32146c6
 importFrom(ggplot2,geom_segment)
 importFrom(ggplot2,geom_text)
 importFrom(ggplot2,geom_tile)
 importFrom(ggplot2,ggplot)
6cb61e1d
 importFrom(ggplot2,ggplotGrob)
65bd00ea
 importFrom(ggplot2,ggplot_build)
f1f0d8d2
 importFrom(ggplot2,ggproto)
c06167f4
 importFrom(ggplot2,guide_legend)
 importFrom(ggplot2,guides)
6f076280
 importFrom(ggplot2,last_plot)
f1f0d8d2
 importFrom(ggplot2,layer)
 importFrom(ggplot2,position_nudge)
b2b46fb5
 importFrom(ggplot2,scale_color_manual)
bbc1de08
 importFrom(ggplot2,scale_fill_discrete)
d32146c6
 importFrom(ggplot2,scale_fill_gradient)
2d259d29
 importFrom(ggplot2,scale_fill_manual)
9cef9e4b
 importFrom(ggplot2,scale_x_continuous)
75f08f2b
 importFrom(ggplot2,scale_x_date)
d32146c6
 importFrom(ggplot2,scale_x_reverse)
9cef9e4b
 importFrom(ggplot2,scale_y_continuous)
d32146c6
 importFrom(ggplot2,theme)
 importFrom(ggplot2,theme_bw)
 importFrom(ggplot2,xlab)
b2b46fb5
 importFrom(ggplot2,xlim)
d32146c6
 importFrom(ggplot2,ylab)
a92aaed1
 importFrom(ggplot2,ylim)
c5822d81
 importFrom(grDevices,col2rgb)
a17e3583
 importFrom(grDevices,colorRampPalette)
c5822d81
 importFrom(grDevices,rgb)
9e9bcff3
 importFrom(graphics,identify)
 importFrom(grid,convertX)
 importFrom(grid,convertY)
 importFrom(grid,dataViewport)
96532506
 importFrom(grid,gpar)
90df068e
 importFrom(grid,grid.layout)
9e9bcff3
 importFrom(grid,grid.locator)
90df068e
 importFrom(grid,grid.newpage)
96532506
 importFrom(grid,grobTree)
90df068e
 importFrom(grid,pushViewport)
c5822d81
 importFrom(grid,rasterGrob)
96532506
 importFrom(grid,rectGrob)
90df068e
 importFrom(grid,unit)
 importFrom(grid,viewport)
d32146c6
 importFrom(magrittr,"%<>%")
 importFrom(magrittr,"%>%")
 importFrom(magrittr,add)
 importFrom(magrittr,equals)
1d7f426b
 importFrom(methods,is)
 importFrom(methods,missingArg)
c72652f9
 importFrom(rvcheck,get_fun_from_pkg)
96532506
 importFrom(scales,alpha)
245479db
 importFrom(tidyr,gather)
64e967bf
 importFrom(treeio,as.phylo)
817c093d
 importFrom(treeio,as.treedata)
1d4d2daf
 importFrom(treeio,get.placements)
817c093d
 importFrom(treeio,groupClade)
 importFrom(treeio,groupOTU)
a17e3583
 importFrom(utils,download.file)
 importFrom(utils,modifyList)
a51a4376
 importFrom(utils,packageDescription)
7ca12fe1
 importFrom(utils,packageVersion)