findCellProximityFeats_per_interaction: findCellProximityFeats_per_interaction

In drieslab/Giotto_site_suite: Spatial Single-Cell Transcriptomics Toolbox

findCellProximityFeats_per_interaction

Description

Identifies features that are differentially expressed due to proximity to other cell types.

Usage

findCellProximityFeats_per_interaction(
  sel_int,
  expr_values,
  cell_metadata,
  annot_spatnetwork,
  cluster_column = NULL,
  minimum_unique_cells = 1,
  minimum_unique_int_cells = 1,
  exclude_selected_cells_from_test = T,
  diff_test = c("permutation", "limma", "t.test", "wilcox"),
  mean_method = c("arithmic", "geometric"),
  offset = 0.1,
  adjust_method = "bonferroni",
  nr_permutations = 100,
  set_seed = TRUE,
  seed_number = 1234
)

Arguments

expr_values

Matrix object

drieslab/Giotto_site_suite documentation built on April 26, 2023, 11:51 p.m.