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Community detection wrapper

Source: R/gene_clustering.R
community_detection_master.Rd

This function is a simplified version of the clustering_pipeline. It starts with an already-generated adjacency matrix and applied the leiden algorithm to identify the clusters. The details of how the algorithm is run are the same as in the clustering_pipeline function.

Usage

community_detection_master(
  adj_object,
  resolutions,
  number_iterations,
  seeds,
  graph_type = "snn",
  memory_log_file = NULL
)

Arguments

adj_object

The adjacency matrix to be used. The matrix should be square and should have defined rownames.

resolutions

Check the clustering_pipeline documentation.

number_iterations

Check the clustering_pipeline documentation.

seeds

Check the clustering_pipeline documentation.

graph_type

Check the clustering_pipeline documentation.

memory_log_file

Check the clustering_pipeline documentation.

Value

A list of lists containing the clusters found for each combination of number of neighbours and quality functions.