Try to coerce something into a dendlist
Bk - Calculating Fowlkes-Mallows Index for two dendrogram
branches_attr_by_clusters
Change col/lwd/lty of branches based on clusters
Color tree's branches according to sub-clusters
Convert a dendrogram into phylo
Color dend's labels according to sub-clusters
cutree for dendrogram (by 1 k value only!)
cutree for dendrogram (by 1 height only!)
Get height attributes from a dendrogram's children
Hang dendrogram leaves
Get/set attributes of dendrogram's leaves
Which height will result in which k for a dendrogram
Intersect trees
Checks if the value is and empty list()
Microarray gene expression dataset from Khan et al., 2001. Subset of 306 genes.
Plotting a left-tip-adjusted horizontal dendrogram
Retrieve/assign cex to the labels of a dendrogram
prune_common_subtrees.dendlist
Prune trees to their common subtrees
Raise the height of a dendrogram tree
Bk permutation - Calculating Fowlkes-Mallows Index for two dendrogram
Bk plot - ploting the Fowlkes-Mallows Index of two dendrogram for various k's
Color unique labels in a dendrogram
Add colored bars to a dendrogram
assign_dendextend_options
Populates dendextend functions into dendextend_options
Change col/lwd/lty of branches matching labels condition
assign_values_to_branches_edgePar
Assign values to edgePar of dendrogram's branches
Plot a circlized dendrograms
Find clusters of common subtrees
Rank branches' heights
Rotates dend based on DendSer
Rotate a tree object
Untangle - random search
untangle_step_rotate_1side
Stepwise untangle one tree compared to another
Baker's Gamma correlation coefficient
Plot dendrogram to webpage and view.
Plots two trees side by side, highlighting edges unique to each tree in red.
Creating a dendlist object from several dendrograms
Functions for extending dendrogram objects
Get attributes of dendrogram's nodes
Get the x-y coordinates of a dendrogram's nodes
Check if numbers are natural
Is the object of class phylo
Counts the number of leaves in a tree
Cut a Tree (Dendrogram/hclust/phylo) into Groups of Data
Get or set current defaults for d3dendrogram
Turns a factor into a number
Find the (estimated) number of clusters for a dendrogram using average silhouette width
Get height attributes from a dendrogram
Calculating Fowlkes-Mallows Index
Get edgePar of dendrogram's leaves
Get nodePar of dendrogram's leaves
Checks if an object is of class dist
Is the object of class hclust
Counts the number of nodes (Vertices) in a tree
The significant branches in a dendrogram, based on a pvclust object
pvclust_show_signif_gradient
Significance gradient of branches in a dendrogram (via pvclust)
Set (/update) features to a dendrogram
Random rotation of trees
Sort the values level in a vector
Tanglegram plot
Which node is a leaf?
Which node id is common to a group of labels
match_order_dendrogram_by_old_order
Adjust the order of one dendrogram based on another (using order)
Last Observation Carried Forward
Objects exported from other packages
Draw Rectangles Around a Dendrogram's Clusters
Sorts two clusters vector by their names
Sorts a distance matrix by rows and columns names
unclass an entire dendrogram tree
Tries to run DendSer on a dendrogram
all_couple_rotations_at_k
Rotate tree branches for k
Check if all the elements in a vector are unique
dendextend_labels.dendrogram
Labels of the Leaves in a Dendrogram
Access to dendextend_options
assign_values_to_leaves_edgePar
Assign values to edgePar of dendrogram's leaves
assign_values_to_leaves_nodePar
Assign values to nodePar of dendrogram's leaves
Topological Distances Between Two dendrograms
Finds distinct edges in one tree compared to another
Flip leaves
Calculating Fowlkes-Mallows Index under H0
Get the colors of the branches of a dendrogram's leaves
Get an attribute of the branches of a dendrogram's leaves
Retrieve/assign colors to the labels of a dendrogram
"label" assignment operator
Ordering of the Leaves in a hclust Dendrogram
A list with labels for each subtree (edge)
Remove all edgePar values from a dendrogram's branches
Remove all nodePar values from a dendrogram's nodes
Remove all nodePar values from a dendrogram's leaves
recursivly apply a function on a list
untangle_step_rotate_2side
Stepwise untangle two trees one at a time
untangle dendrograms
Interactively rotate a tree object
Collapse branches under a tolerance level
Correlation of FM_index for some k
Correlation matrix between a list of trees.
Counts the number of terminal nodes (merging 0 nodes!)
Cut a dendrogram - and run a function on the output
Duplicate a leaf X times
Measures entanglement between two trees
Calculating Fowlkes-Mallows index in R
Calculating Fowlkes-Mallows index using the profdpm R package
Identify Clusters in a Dendrogram (not hclust)
Highlight distint edges in a tree (compared to another one)
Ladderize a Tree
Return the leaf Colors of a dendrogram
Trims one leaf from a dendrogram
Prunes a tree (using leaves' labels)
Creates completely blank theme in ggplot
unbranch trees
Global Comparison of two (or more) dendrograms
Convert dendrogram Objects to Class hclust
assign_values_to_nodes_nodePar
Assign values to nodePar of dendrogram's nodes
bakers_gamma_for_2_k_matrix
Bakers Gamma for two k matrices
Proportion of commong nodes between two trees
Cophenetic correlation between two trees
Tries to run DendSer on a dendrogram
Turns a dist object to a "long" table
fix_members_attr.dendrogram
Fix members attr in a dendrogram
Flatten the branches of a dendrogram's root
get attributes from the dendrogram's root(!) branches
Creates dendrogram plot using ggplot.
Checks if an object is of class dendlist
Is the object of class dendrogram
Adjust the order of one dendrogram based on another (using labels)
Find which nodes satisfies a condition
Find lowest common branch were the two items are shared
order.dendrogram<- assignment operator
Fix rank of leaves order values in a dendrogram
Sample a tree
rank_values_with_clusters
Rank a vector based on clusters
Rotates a dendrogram based on a seriation of a distance matrix