mcell_mgraph_logistic: Compute metacell manifold graph using logistic distances and...

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

Compute metacell manifold graph using logistic distances and balanced K-nn

Description

Compute metacell manifold graph using logistic distances and balanced K-nn

Usage

mcell_mgraph_logistic(
  mgraph_id,
  mc_id,
  feats_gset,
  ignore_edges = NULL,
  feats_exclude = NULL,
  logist_loc = 1,
  logist_scale = 0.2,
  logist_eps = 0.00004,
  max_d_fold = 3
)

Arguments

mgraph_id	id of new object
mc_id	meta cell id to work with
feats_gset	gene set name for use for computing distances
ignore_edges	provide a data frame with mc1,mc2 pairs of edges to delete manually
feats_exclude	list of genes to exclude from the features gene set
logist_loc	the "location" parametr of the logistic function used to determine parametric distances between metacelles
logist_scale	the "lscale" parametr of the logistic function used to determine parametric distances between metacelles

tanaylab/metacell documentation built on Oct. 19, 2023, 1:01 p.m.