dot-plotManifold_def: DEF: Visualizing the manifold

Description Usage Arguments Value Author(s)

Description

Plots approximation of sample embedding in latent space in two dimensions

Usage

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.plotManifold_def(
  X,
  y,
  name,
  g = NULL,
  weights = NULL,
  axis_label = "",
  colors = c("pretty", "bw"),
  type = c("raw", "surface.fit", "surface.se"),
  samples_only = FALSE,
  setND = FALSE,
  alpha = 0.1
)

Arguments

X

Ordination of data points

y

Values to visualize

name

Label for the figure legend

g

The trajectory graph

weights

States along the trajectory

axis_label

Label prefix for each axis

colors

Either the color ramp is colorized or black/white

type

Type of visualization

samples_only

Does not show the whole surface, but colorizes only the samples

setND

Indicates if a '0' value should be set to 'ND' in the figure legend

alpha

Color param

Value

A ggplot object

Author(s)

Daniel C. Ellwanger


dcellwanger/CellTrails documentation built on May 12, 2020, 2:01 a.m.