cellProximityVisPlot_2D_ggplot: cellProximityVisPlot_2D_ggplot

In bernard2012/Giotto: Spatial single-cell transcriptomics toolbox

Description

Visualize 2D cell-cell interactions according to spatial coordinates in ggplot mode

Usage

cellProximityVisPlot_2D_ggplot(
  gobject,
  interaction_name = NULL,
  cluster_column = NULL,
  sdimx = NULL,
  sdimy = NULL,
  cell_color = NULL,
  cell_color_code = NULL,
  color_as_factor = T,
  show_other_cells = F,
  show_network = F,
  show_other_network = F,
  network_color = NULL,
  spatial_network_name = "Delaunay_network",
  show_grid = F,
  grid_color = NULL,
  spatial_grid_name = "spatial_grid",
  coord_fix_ratio = 1,
  show_legend = T,
  point_size_select = 2,
  point_select_border_col = "black",
  point_select_border_stroke = 0.05,
  point_size_other = 1,
  point_alpha_other = 0.3,
  point_other_border_col = "lightgrey",
  point_other_border_stroke = 0.01,
  ...
)

Details

Description of parameters.

Value

ggplot

bernard2012/Giotto documentation built on Sept. 22, 2020, 10:29 a.m.