dot-plotManifold_def: DEF: Visualizing the manifold

In CellTrails: Reconstruction, visualization and analysis of branching trajectories

Description

Plots approximation of sample embedding in latent space in two dimensions

Usage

.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

CellTrails documentation built on Nov. 8, 2020, 5:53 p.m.