%>%	reexports
as.phylo	reexports
as.treedata	as.treedata
as.treedata.phylo	as.treedata
beast-class	beast-class
codeml-class	codeml-class
codeml_mlc-class	codeml_mlc-class
drop.tip	drop.tip-methods
drop.tip,phylo	drop.tip-methods
drop.tip,phylo-method	drop.tip-methods
drop.tip,treedata	drop.tip-methods
drop.tip,treedata-method	drop.tip-methods
get.fields	get.fields-methods
get.fields,beast-method	get.fields-methods
get.fields,codeml-method	get.fields-methods
get.fields,codeml_mlc-method	get.fields-methods
get.fields,hyphy-method	get.fields-methods
get.fields,jplace,ANY-method	get.fields-methods
get.fields,jplace-method	jplace-class
get.fields,paml_rst-method	get.fields-methods
get.fields,phangorn-method	get.fields-methods
get.fields,r8s-method	get.fields-methods
get.fields,treedata-method	get.fields-methods
get.placements	get.placements-methods
get.placements,jplace,ANY-method	get.placements-methods
get.placements,jplace-method	jplace-class
get.subs	get.subs-methods
get.subs,codeml-method	get.subs-methods
get.subs,hyphy-method	get.subs-methods
get.subs,paml_rst-method	get.subs-methods
get.subs,phangorn-method	get.subs-methods
get.tipseq	get.tipseq-methods
get.tipseq,codeml-method	get.tipseq-methods
get.tipseq,paml_rst-method	get.tipseq-methods
get.tree	get.tree-methods
get.tree,beast	get.tree-methods
get.tree,beast-method	beast-class
get.tree,codeml-method	get.tree-methods
get.tree,codeml_mlc-method	get.tree-methods
get.tree,hyphy-method	get.tree-methods
get.tree,jplace-method	get.tree-methods
get.tree,paml_rst-method	get.tree-methods
get.tree,phangorn-method	get.tree-methods
get.tree,phylip-method	get.tree-methods
get.tree,phylo-method	get.tree-methods
get.tree,r8s-method	get.tree-methods
get.tree,treedata-method	get.tree-methods
get.treeinfo,jplace-method	jplace-class
get.treetext	get.treetext-methods
get.treetext,jplace,ANY-method	get.treetext-methods
get.treetext,jplace-method	jplace-class
getNodeNum	getNodeNum
getRoot	getRoot
groupClade	groupClade-methods
groupClade,beast-method	groupClade-methods
groupClade,codeml-method	groupClade-methods
groupClade,jplace-method	groupClade-methods
groupClade,phangorn-method	groupClade-methods
groupClade,phylip-method	groupClade-methods
groupClade,phylo-method	groupClade-methods
groupClade,treedata-method	groupClade-methods
groupOTU	groupOTU-methods
groupOTU,beast-method	groupOTU-methods
groupOTU,codeml-method	groupOTU-methods
groupOTU,codeml_mlc-method	groupOTU-methods
groupOTU,jplace-method	groupOTU-methods
groupOTU,paml_rst-method	groupOTU-methods
groupOTU,phangorn-method	groupOTU-methods
groupOTU,phylip-method	groupOTU-methods
groupOTU,phylo-method	groupOTU-methods
groupOTU,r8s-method	groupOTU-methods
groupOTU,treedata-method	groupOTU-methods
groupOTU.phylo	groupOTU.phylo
hyphy-class	hyphy-class
is.ggtree	is.ggtree
jplace-class	jplace-class
label_branch_paml	label_branch_paml
mask	mask
merge_tree	merge_tree
Nnode	Nnode
Nnode2	getNodeNum
Ntip	Ntip
paml_rst-class	paml_rst-class
phangorn-class	phangorn-class
phylip-class	phylip-class
phyPML	phyPML
pmlToSeq	pmlToSeq
print.beastList	print.beastList
r8s-class	r8s-class
raxml2nwk	raxml2nwk
read.baseml	read.baseml
read.beast	read.beast
read.codeml	read.codeml
read.codeml_mlc	read.codeml_mlc
read.hyphy	read.hyphy
read.jplace	read.jplace
read.newick	read.newick
read.nhx	read.nhx
read.paml_rst	read.paml_rst
read.phylip	read.phylip
read.phyloT	read.phyloT
read.r8s	read.r8s
read.raxml	read.raxml
read.tree	reexports
reexports	reexports
rtree	reexports
set.subs,paml_rst-method	paml_rst-class
set.subs<-,paml_rst-method	paml_rst-class
show	show-methods
show,beast-method	show-methods
show,codeml-method	show-methods
show,codeml_mlc-method	show-methods
show,hyphy-method	show-methods
show,jplace-method	jplace-class
show,paml_rst-method	show-methods
show,phylip-method	show-methods
show,r8s-method	show-methods
show,treedata-method	show-methods
taxa_rename	taxa_rename
treedata-class	treedata-class
write.jplace	write.jplace
write.tree	reexports
