ClusterQuality: cluster-ability of a dataset

In YosefLab/SymSim: Simulate Single Cell RNA Sequencing Data

cluster-ability of a dataset

Description

how well can the cell population be reconstructed by dimensionality reduction methods

Usage

ClusterQuality(
  data,
  meta,
  n_pc,
  perplexity,
  dims,
  npop = 5,
  return_kmeans = F,
  pca_scale = F
)

Arguments

data:	transcriptomics matrix
meta:	information about cells, must contain 'pop' column
n_pc:	number of principal components that is fed to tsne
perplexity:	perplexity parameter for tsne
dims:	number of dimensions kept after tsne

YosefLab/SymSim documentation built on Sept. 30, 2024, 2:22 p.m.