R: Plotting a dimensional reduction representation

plotmap {RaceID}

R Documentation

Plotting a dimensional reduction representation

This functions plots a two-dimensional t-SNE map, UMAP, or a Fruchterman-Rheingold graph layout of the singe-cell transcriptome data.

plotmap(object, final = TRUE, tp = 1, fr = FALSE, um = FALSE, cex = 0.5)

`object`	`SCseq` class object.
`final`	logical. If `TRUE`, then highlight final clusters after outlier identification. If `FALSE`, then highlight initial clusters prior to outlier identification. Default is `TRUE`.
`tp`	Number between 0 and 1 to change transparency of dots in the map. Default is 1.
`fr`	logical. If `TRUE` then plot Fruchterman-Rheingold layout. Default is `FALSE`.
`um`	logical. If `TRUE` then plot umap dimensional reduction representation. Default is `FALSE`.
`cex`	size of data points. Default value is 0.5.

None

[Package RaceID version 0.3.5 Index]