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Inter-dataset cluster similarity

inter_dataset_comparison.Rd

Quantify the similarity between clusters of two datasets, on the basis of the average cluster marker expression

Usage

inter_dataset_comparison(
  seu_obj_list = NULL,
  gsl = NULL,
  genes_min = 3,
  genes_max = 500,
  mc.cores = 1,
  ncells_min = 5,
  cluster_rows = FALSE,
  cluster_columns = FALSE,
  ...
)

Arguments

seu_obj_list

list of Seurat objects

gsl

gene set list

genes_min

minimum number of genes required among the markers of a cluster

genes_max

maximum number of genes required among the markers of a cluster

mc.cores

number of cores

ncells_min

minim number of cells in a cluster

cluster_rows

whether to cluster or not the rows

cluster_columns

whether to cluster or not the columns

...

arguments passed to calculate_gs_scores

Value

A list with:

  • clust_sim, matrix of clucster similarity;

  • m1=m1

  • m2=m2

  • markers_1, markers of dataset 1;

  • markers_2, markers of dataset 2;