aggValue | Perform data aggregations based on the available tree structures |
colLinks | TreeSummarizedExperiment-accessors |
colLinks-method | TreeSummarizedExperiment-accessors |
colTree | TreeSummarizedExperiment-accessors |
colTree-method | TreeSummarizedExperiment-accessors |
countLeaf | count the number of leaf nodes |
countNode | count the number of nodes |
distNode | Calculate the distance between any two nodes on the tree |
findAncestor | Find the ancestors of specified nodes |
findOS | Find descendants (or offsprings) |
findSibling | find the sibling node |
isLeaf | To test whether the specified nodes are leaf nodes |
LinkDataFrame | Construct a LinkDataFrame Construct a LinkDataFrame object |
LinkDataFrame-class | LinkDataFrame: A S4 class extended from DataFrame An S4 class LinkDataFrame |
LinkDataFrame-constructor | Construct a LinkDataFrame Construct a LinkDataFrame object |
matTree | Transform a phylo object into a matrix. |
printNode | To print out the node labels |
pruneTree | remove branches of a phylo tree |
rowLinks | TreeSummarizedExperiment-accessors |
rowLinks-method | TreeSummarizedExperiment-accessors |
rowTree | TreeSummarizedExperiment-accessors |
rowTree-method | TreeSummarizedExperiment-accessors |
shareNode | Find the share node |
signalNode | find the optimal nodes to short result. |
tinyTree | A simulated phylogenetic tree with 10 tips and 9 internal nodes |
toTree | Translate a data frame to a phylo object |
trackNode | track the nodes of a phylo tree |
transNode | Transfer between node number and node label |
TreeSummarizedExperiment | Construct a TreeSummarizedExperiment object |
TreeSummarizedExperiment-accessor | TreeSummarizedExperiment-accessors |
TreeSummarizedExperiment-class | An S4 class TreeSummarizedExperiment |
TreeSummarizedExperiment-constructor | Construct a TreeSummarizedExperiment object |
[-method | TreeSummarizedExperiment-accessors |