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Cluster communication-dependent genes

Source: R/downstream_analysis.R
communication_deg_clustering.Rd

Group communication-dependent genes based on expression patterns.

Usage

communication_deg_clustering(
  seurat_obj,
  database_name,
  deg_results,
  key = "total",
  signal_type = c("sender", "receiver"),
  top_n_genes = 100L,
  n_clusters = 5L,
  assay = NULL,
  slot = "data",
  verbose = TRUE
)

Arguments

seurat_obj

Seurat object.

database_name

Database name.

deg_results

Results from communication_deg_detection().

key

LR pair or pathway name.

signal_type

"sender" or "receiver".

top_n_genes

Number of top genes to cluster (default: 100).

n_clusters

Number of clusters (default: 5).

assay

Assay to use.

slot

Expression slot.

verbose

Print progress.

Value

List with cluster assignments and cluster patterns.