| ancestor | ancestor | 
| ancestor.tbl_tree | ancestor | 
| as.treedata | as.treedata | 
| as.treedata.tbl_tree | as.treedata | 
| as.ultrametric | as.ultrametric | 
| child | child | 
| child.tbl_tree | child | 
| drop.tip | drop.tip method | 
| drop.tip,phylo | drop.tip method | 
| drop.tip,treedata | drop.tip method | 
| drop.tip-method | drop.tip method | 
| get.data | get.data method | 
| get.data-method | get.data method | 
| get.fields | get.fields method | 
| get.fields,treedata | get.fields method | 
| get.fields-method | get.fields method | 
| get.treetext | get.treetext method | 
| get.treetext-method | get.treetext method | 
| getNodeNum | getNodeNum | 
| get_tree_data | get_tree_data | 
| groupClade | groupClade | 
| groupOTU | groupOTU | 
| isTip | isTip | 
| isTip.phylo | isTip | 
| isTip.tbl_tree | isTip | 
| isTip.treedata | isTip | 
| keep.tip | drop.tip method | 
| keep.tip-method | drop.tip method | 
| MRCA | MRCA | 
| Nnode.treedata | Nnode | 
| node.label | extract the node label of phylo, treedata or tbl_tree | 
| node.label<- | the tip or internal node label assign of tbl_tree phylo and treedata | 
| node.label<-.phylo | the tip or internal node label assign of tbl_tree phylo and treedata | 
| node.label<-.tbl_tree | the tip or internal node label assign of tbl_tree phylo and treedata | 
| node.label<-.treedata | the tip or internal node label assign of tbl_tree phylo and treedata | 
| nodeid | nodeid | 
| nodelab | nodelab | 
| offspring | offspring | 
| offspring.tbl_tree | offspring | 
| parent | parent | 
| parent.tbl_tree | parent | 
| root.treedata | root | 
| rootnode | rootnode | 
| show | show method | 
| show-method | Class "treedata" This class stores phylogenetic tree with associated data | 
| sibling | sibling | 
| td-label-assign | the tip or internal node label assign of tbl_tree phylo and treedata | 
| tip.label | extract the tip label of phylo treedata or tbl_tree | 
| tip.label<- | the tip or internal node label assign of tbl_tree phylo and treedata | 
| tip.label<-.phylo | the tip or internal node label assign of tbl_tree phylo and treedata | 
| tip.label<-.tbl_tree | the tip or internal node label assign of tbl_tree phylo and treedata | 
| tip.label<-.treedata | the tip or internal node label assign of tbl_tree phylo and treedata | 
| treedata | treedata | 
| treedata-class | Class "treedata" This class stores phylogenetic tree with associated data | 
| tree_subset | Subset tree objects by related nodes | 
| tree_subset.phylo | Subset tree objects by related nodes | 
| tree_subset.treedata | Subset tree objects by related nodes |