dendrogram_rjs {RJSplot}

Draw a Dendrogram.

Description

dendrogram_rjs creates a dendrogram.

Usage

dendrogram_rjs(data, metadata = NULL, method = "complete", cex = 1,
               plot = TRUE, jupyter = FALSE, dir = tempdir())

Arguments

data

a dissimilarity object of class dist (p.e. produced by function dist).

metadata

a data frame with metadata information for leaf features (p.e. sample phenotypes). Corresponding Leaf/Sample should be provided as row name.

method

Name of the agglomeration method to be used. It should be (an unambiguous abbreviation of) one of "ward.D", "ward.D2", "single", "complete", "average" (= UPGMA), "mcquitty" (= WPGMA), "median" (= WPGMC) or "centroid" (= UPGMC).

cex

number indicating the amount by which plotting text and symbols should be scaled relative to the default.

plot

open resulting graph in your browser.

jupyter

embed the graph as an iframe into a Jupyter Notebook.

dir

A "character" string representing the directory where the graph will be saved.

Value

The function creates a folder in your computer with an HTML document named index.html which contains the graph. This file can be directly opened with your browser.

Author(s)

David Barrios and Carlos Prieto. Bioinformatics Service of Nucleus, University of Salamanca. See https://bioinfo.usal.es/

See Also

The ‘RJSplot’ Website: https://rjsplot.usal.es

dendrogram_rjs, densityplot_rjs, genomemap_rjs, heatmap_rjs, manhattan_rjs, network_rjs, scatterplot_rjs, symheatmap_rjs, wordcloud_rjs, boxplot_rjs, bubbles_rjs, hiveplot_rjs, piechart_rjs, barplot_rjs, tables_rjs, surface3d_rjs, scatter3d_rjs.

Examples

## Create a dendrogram in a temporal directory of your local machine
## Live examples on https://rjsplot.usal.es
if(interactive()){
dendrogram_rjs(dist(USArrests),USArrests)
}