CellChat (version 1.0.0)

netEmbedding: Manifold learning of the signaling networks based on their similarity

Description

Manifold learning of the signaling networks based on their similarity

Usage

netEmbedding(
  object,
  slot.name = "netP",
  type = c("functional", "structural"),
  comparison = NULL,
  pathway.remove = NULL,
  k = NULL
)

Arguments

object

CellChat object

slot.name

the slot name of object that is used to compute centrality measures of signaling networks

type

"functional","structural"

comparison

a numerical vector giving the datasets for comparison. No need to define for a single dataset. Default are all datasets when object is a merged object

pathway.remove

a range of the number of patterns

k

the number of nearest neighbors in running umap

Value