umap_browser: Shiny application to visualize UMAP results
In jmonlong/scCNAutils: Functions to analyze copy number aberrations in single-cell data

umap_browser

R Documentation

Shiny application to visualize UMAP results

Description

Interactive application to visualize the UMAP results: zoom, hover information, different colors.

Usage

umap_browser(cells_df, nb_points = 5000, plot_dim = 800)

Arguments

`cells_df`	the data.frame with UMAP and other information for each cell
`nb_points`	the default number of points to show. See details.
`plot_dim`	the dimension of the plot in pixels.

Details

Drawing thousands of points in a web-browser can be demanding. To reduce the number of points (cells) to draw, close-by cells are merged into bigger points. The merging is done separately for different samples/communities to be able to color them if necessary. The user can decide how many points to draw with the 'nb_points' parameter or directly within the application. In practice, increase the number of points until the app gets too slow.