metacells_cluster: Metacells by clustering within communities.

In jmonlong/scCNAutils: Functions to analyze copy number aberrations in single-cell data

Metacells by clustering within communities.

Description

Metacells by clustering within communities.

Usage

metacells_cluster(
  groups.df,
  ge_df,
  metacell_size,
  nb_cores = 1,
  hclust_method = "ward.D"
)

Arguments

groups.df	the filtered data.frame with community information
ge_df	normalized gene expression of all cells (e.g. output from norm_ge.
metacell_size	the number of cells in a metacell.
nb_cores	the number of processor to use.
hclust_method	the 'method' used when clustering (see hclust).

Value

a list with

cells.tm	a list with cell names for each metacell.
cells.info	a data.frame recording the community of origina for each metacell.

Author(s)

Jean Monlong

jmonlong/scCNAutils documentation built on Feb. 8, 2025, 8:09 a.m.