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