A Tidy Tool for Phylogenetic Tree Data Manipulation
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Documentation for package ‘tidytree’ version 0.4.6
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| 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 |