bigMap (version 2.3.1)

bdm.ptsne.plot: Plot ptSNE (low-dimensional embedding)

Description

Plot ptSNE (low-dimensional embedding)

Usage

bdm.ptsne.plot(bdm, ptsne.cex = 0.5, ptsne.bg = "#FFFFFF",
  class.pltt = NULL, layer = 1)

Arguments

bdm

A bdm instance as generated by bdm.init() or a list of them to make a comparative plot.

ptsne.cex

The size of the mapped data-points in the ptSNE plot. Default value is ptsne.cex = 0.5.

ptsne.bg

The background colour of the ptSNE plot. Default value is ptsne.bg = #FFFFFF (white).

class.pltt

A colour palette to show class labels in the ptSNE plot. If !is.null(bdm$wtt) cluster labels are used by default, else if !is.null(bdm$lbls) are used by default. If ptsne.pltt = NULL (default value) the default palette is used.

layer

The bdm$ptsne layer to be used (default value is layer = 1).

Value

None.

Examples

# NOT RUN {
bdm.example()
exMap <- bdm.ptsne.plot(exMap)
# }