dimPlot_3D_plotly: dimPlot_3D_plotly

In RubD/Giotto: Spatial Single-Cell Transcriptomics Toolbox

dimPlot_3D_plotly

Description

Visualize cells at their 3D dimension reduction coordinates with plotly

Usage

dimPlot_3D_plotly(
  gobject,
  dim_reduction_to_use = "umap",
  dim_reduction_name = "umap",
  dim1_to_use = 1,
  dim2_to_use = 2,
  dim3_to_use = 3,
  spat_enr_names = NULL,
  select_cell_groups = NULL,
  select_cells = NULL,
  show_other_cells = T,
  other_cell_color = "lightgrey",
  other_point_size = 0.5,
  show_NN_network = F,
  nn_network_to_use = "sNN",
  network_name = "sNN.pca",
  color_as_factor = T,
  cell_color = NULL,
  cell_color_code = NULL,
  show_cluster_center = F,
  show_center_label = T,
  center_point_size = 4,
  label_size = 4,
  edge_alpha = NULL,
  point_size = 1
)

Value

plotly object

RubD/Giotto documentation built on April 29, 2023, 5:52 p.m.