mcell_mgraph_knn: Compute metacell manifod graph using the confusion matrix of...

In tanaylab/metacell: Meta cell analysis for single cell RNA-seq data

Compute metacell manifod graph using the confusion matrix of balanced K-nn between individual cells projected on metacells

Description

Compute metacell manifod graph using the confusion matrix of balanced K-nn between individual cells projected on metacells

Usage

mcell_mgraph_knn(
  mgraph_id,
  mc_id,
  graph_id = NULL,
  mctnetwork_id = NULL,
  symmetrize = F,
  ignore_mismatch = F,
  ignore_edges = NULL
)

Arguments

mgraph_id	id of new object
mc_id	meta cell id to work with
graph_id	graph_id of the similarity graph on cells from the metacell, in case confusion should be computed from similarities.
mctnetwork_id	id of a network object, in case confusion should be comuted from flows.
ignore_mismatch	try if the cgraph id can be partially overlapping with the metacell object - false by defualt and should be kept this way
ignore_edges	provide a data frame with mc1,mc2 pairs of edges to delete manually
symetrize	should the mc confusion matrix be symmetrized before computing layout?

tanaylab/metacell documentation built on Jan. 29, 2025, 1:34 a.m.