# Generated by roxygen2: do not edit by hand

 
 S3method(as.binary,phylo)
 S3method(as.data.frame,phylo)

 S3method(fortify,apeBootstrap)

 S3method(fortify,beast)
 S3method(fortify,codeml)
 S3method(fortify,codeml_mlc)
 S3method(fortify,hyphy)
 S3method(fortify,jplace)

 S3method(fortify,multiPhylo)

 S3method(fortify,nhx)

 S3method(fortify,obkData)

 S3method(fortify,paml_rst)

 S3method(fortify,phangorn)

 S3method(fortify,phylip)

 S3method(fortify,phylo)
 S3method(fortify,phylo4)

 S3method(fortify,phylo4d)

 S3method(fortify,phyloseq)

 S3method(fortify,r8s)
 S3method(fortify,raxml)

 S3method(identify,gg)

 S3method(print,beastList)

 export("%+>%")

 export("%<%")
 export("%<+%")

 export("%>%")

 export(.)

 export(Date2decimal)

 export(MRCA)

 export(StatBalance)

 export(StatHilight)

 export(add_colorbar)

 export(annotation_image)

 export(apeBoot)

 export(as.binary)

 export(as.polytomy)

 export(collapse)

 export(decimal2Date)

 export(download.phylopic)

 export(expand)

 export(facet_plot)

 export(flip)

 export(geom_aline)

 export(geom_balance)

 export(geom_cladelabel)
 export(geom_hilight)

 export(geom_label2)

 export(geom_nodepoint)

 export(geom_point2)

 export(geom_range)

 export(geom_rootpoint)

 export(geom_segment2)

 export(geom_strip)

 export(geom_taxalink)

 export(geom_text2)

 export(geom_tiplab)

 export(geom_tiplab2)

 export(geom_tippoint)
 export(geom_tree)

 export(geom_tree2)

 export(geom_treescale)

 export(get.fields)

 export(get.offspring.tip)

 export(get.path)

 export(get.phylopic)

 export(get.placements)
 export(get.subs)

 export(get.tipseq)

 export(get.tree)
 export(get.treeinfo)
 export(get.treetext)

 export(getNodeNum)
 export(getRoot)

 export(get_balance_position)

 export(get_clade_position)
 export(get_heatmap_column_position)

 export(get_taxa_name)

 export(ggtree)

 export(gheatmap)

 export(groupClade)

 export(groupOTU)
 export(gzoom)

 export(inset)

 export(mask)

 export(merge_tree)

 export(msaplot)

 export(multiplot)

 export(nodebar)

 export(nodeid)

 export(nodepie)

 export(open_tree)

 export(phyPML)

 export(phylopic)

 export(plot)

 export(pmlToSeq)

 export(raxml2nwk)

 export(read.baseml)
 export(read.beast)
 export(read.codeml)
 export(read.codeml_mlc)
 export(read.hyphy)
 export(read.jplace)

 export(read.nhx)

 export(read.paml_rst)

 export(read.phylip)

 export(read.r8s)
 export(read.raxml)

 export(read.tree)

 export(reroot)

 export(rescale_tree)

 export(rotate)

 export(rotate_tree)

 export(rtree)

 export(scaleClade)

 export(scale_color)

 export(scale_x_ggtree)

 export(stat_balance)

 export(stat_hilight)

 export(subview)

 export(theme_inset)

 export(theme_transparent)

 export(theme_tree)
 export(theme_tree2)

 export(viewClade)

 export(write.jplace)

 exportClasses(apeBootstrap)

 exportClasses(beast)
 exportClasses(codeml)
 exportClasses(codeml_mlc)
 exportClasses(hyphy)
 exportClasses(jplace)

 exportClasses(nhx)

 exportClasses(paml_rst)

 exportClasses(phangorn)

 exportClasses(phylip)

 exportClasses(r8s)
 exportClasses(raxml)

 exportMethods(get.fields)
 exportMethods(get.placements)
 exportMethods(get.subs)

 exportMethods(get.tipseq)

 exportMethods(get.tree)
 exportMethods(get.treeinfo)
 exportMethods(get.treetext)

 exportMethods(groupClade)

 exportMethods(groupOTU)

 exportMethods(gzoom)

 exportMethods(plot)

 exportMethods(reroot)

 exportMethods(scale_color)

 exportMethods(show)

 importFrom(ape,Nnode)

 importFrom(ape,Ntip)

 importFrom(ape,di2multi)

 importFrom(ape,drop.tip)

 importFrom(ape,extract.clade)

 importFrom(ape,getMRCA)

 importFrom(ape,is.binary.tree)
 importFrom(ape,ladderize)
 importFrom(ape,print.phylo)
 importFrom(ape,read.nexus)
 importFrom(ape,read.tree)
 importFrom(ape,reorder.phylo)

 importFrom(ape,which.edge)

 importFrom(ape,write.tree)

 importFrom(ggplot2,GeomCurve)

 importFrom(ggplot2,GeomLabel)

 importFrom(ggplot2,GeomPoint)
 importFrom(ggplot2,GeomRect)
 importFrom(ggplot2,GeomSegment)
 importFrom(ggplot2,GeomText)
 importFrom(ggplot2,Stat)

 importFrom(ggplot2,aes)

 importFrom(ggplot2,aes_)

 importFrom(ggplot2,aes_string)
 importFrom(ggplot2,annotate)

 importFrom(ggplot2,annotation_custom)

 importFrom(ggplot2,coord_flip)
 importFrom(ggplot2,coord_polar)

 importFrom(ggplot2,draw_key_path)
 importFrom(ggplot2,draw_key_point)
 importFrom(ggplot2,draw_key_text)

 importFrom(ggplot2,element_blank)
 importFrom(ggplot2,element_line)
 importFrom(ggplot2,element_rect)

 importFrom(ggplot2,facet_grid)

 importFrom(ggplot2,fortify)

 importFrom(ggplot2,geom_bar)

 importFrom(ggplot2,geom_rect)

 importFrom(ggplot2,geom_segment)
 importFrom(ggplot2,geom_text)
 importFrom(ggplot2,geom_tile)
 importFrom(ggplot2,ggplot)

 importFrom(ggplot2,ggplotGrob)

 importFrom(ggplot2,ggproto)

 importFrom(ggplot2,guide_legend)
 importFrom(ggplot2,guides)

 importFrom(ggplot2,last_plot)

 importFrom(ggplot2,layer)
 importFrom(ggplot2,position_nudge)

 importFrom(ggplot2,scale_color_manual)

 importFrom(ggplot2,scale_fill_discrete)

 importFrom(ggplot2,scale_fill_gradient)

 importFrom(ggplot2,scale_fill_manual)

 importFrom(ggplot2,scale_x_continuous)

 importFrom(ggplot2,scale_x_date)

 importFrom(ggplot2,scale_x_reverse)

 importFrom(ggplot2,scale_y_continuous)

 importFrom(ggplot2,theme)
 importFrom(ggplot2,theme_bw)
 importFrom(ggplot2,xlab)

 importFrom(ggplot2,xlim)

 importFrom(ggplot2,ylab)

 importFrom(ggplot2,ylim)

 importFrom(grDevices,col2rgb)

 importFrom(grDevices,colorRampPalette)

 importFrom(grDevices,rgb)

 importFrom(graphics,identify)
 importFrom(grid,convertX)
 importFrom(grid,convertY)
 importFrom(grid,dataViewport)

 importFrom(grid,grid.layout)

 importFrom(grid,grid.locator)

 importFrom(grid,grid.newpage)
 importFrom(grid,pushViewport)

 importFrom(grid,rasterGrob)

 importFrom(grid,unit)
 importFrom(grid,viewport)

 importFrom(jsonlite,fromJSON)
 importFrom(magrittr,"%<>%")
 importFrom(magrittr,"%>%")
 importFrom(magrittr,add)
 importFrom(magrittr,equals)

 importFrom(methods,"slot<-")
 importFrom(methods,.hasSlot)
 importFrom(methods,is)
 importFrom(methods,missingArg)
 importFrom(methods,new)

 importFrom(methods,show)

 importFrom(methods,slot)

 importFrom(stats4,plot)

 importFrom(tidyr,gather)

 importFrom(utils,download.file)
 importFrom(utils,modifyList)

 importFrom(utils,packageVersion)