The metric between every pair of rows: the condensed vector of dist() or the square matrix — metric_pairwise • popfidelity

The metric between every pair of rows: the condensed vector of dist() or the square matrix

Usage

metric_pairwise(
  cells,
  metric = "nemd",
  form = c("condensed", "square"),
  epsilon = NULL,
  base = NULL,
  bandwidth = NULL,
  positions = NULL
)

Arguments

cells: Cells or a matrix with one distribution per row.
metric: A name from metric_names().
form: "condensed" or "square".
epsilon: Smoothing added before Kullback-Leibler, or NULL.
base: Logarithm base for KL and Jensen-Shannon, or NULL for 2.
bandwidth: Gaussian kernel bandwidth for MMD, or NULL.
positions: Option positions on the answer scale, or NULL for 0, 1, 2, ...

Value

A numeric vector or a symmetric matrix.