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