R: UMAP graph layouts

layout_umap {graphlayouts} | R Documentation

## UMAP graph layouts

### Description

Using the UMAP dimensionality reduction algorithm as a graph layout

### Usage

    layout_with_umap(g, pivots = NULL, ...)

    layout_igraph_umap(g, circular, ...)

### Arguments

`g` | igraph object
`pivots` | if not NULL, number of pivot nodes to use for distance calculation (for large graphs).
`...` | additional parameters for umap. See the `?uwot::umap` for help.
`circular` | not used

### Details

The layout_igraph_* function should not be used directly. It is only used as an argument for plotting with 'igraph'. UMAP can be tuned by many different parameters. Refer to the documentation at https://github.com/jlmelville/uwot for help

### Value

matrix of xy coordinates

### Author(s)

David Schoch

### References

McInnes, Leland, John Healy, and James Melville. "Umap: Uniform manifold approximation and projection for dimension reduction." arXiv preprint arXiv:1802.03426 (2018).

### Examples

    library(igraph)

    g <- sample_islands(10,20,0.6,10)
    xy <- layout_with_umap(g,min_dist = 0.5)

[Package graphlayouts version 0.8.0 Index]