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scPOP (version 0.1.0)

compute_simpson_index: Compute the Local Inverse Simpson Index (LISI)

Description

Compute the Local Inverse Simpson Index (LISI)

Usage

compute_simpson_index(
  D,
  knn_idx,
  batch_labels,
  n_batches,
  perplexity = 15,
  tol = 1e-05
)

Arguments

D

Distance matrix of K nearest neighbors.

knn_idx

Adjacency matrix of K nearest neighbors.

batch_labels

A categorical variable.

n_batches

The number of categories in the categorical variable.

perplexity

The effective number of neighbors around each cell.

tol

Stop when the score converges to this tolerance.