Save cell attraction and inhibition patterns for simulation

Usage

cellProximityTable(
  gobject,
  output_file = file.path(getwd(), "est_CCI_dist_dist.csv"),
  abs_enrichm = 0.3,
  p_adj = 0.05,
  spatial_network_name = "Delaunay_network",
  save.unfiltered = F,
  seed = NULL
)

Arguments

gobject: Giotto object, output of preprocessGiotto.
output_file: Provide a path and file name to save the CCI results for use in sCCIgen.
abs_enrichm: Effect size threshold for saving.
p_adj: Adjusted p-value threshold (Default = 0.05) for saving.
spatial_network_name: Networks to choose. Possible values include "Delaunay_network", "distance_based_network", "knn_network".
save.unfiltered: If save a parallel table for all results, unfiltered by asb_enrich and p_adj.
seed: Seed.