get_similarity: Compute similarity of matrices

Description Usage Arguments Value

View source: R/compute_similarity.R

Description

Compute similarity of matrices

Usage

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get_similarity(
  expr_mat,
  ref_mat,
  cluster_ids,
  compute_method,
  per_cell = FALSE,
  rm0 = FALSE,
  if_log = TRUE,
  low_threshold = 0,
  ...
)

Arguments

expr_mat

single-cell expression matrix

ref_mat

reference expression matrix

cluster_ids

vector of cluster ids for each cell

compute_method

method(s) for computing similarity scores

per_cell

run per cell?

rm0

consider 0 as missing data, recommended for per_cell

if_log

input data is natural log, averaging will be done on unlogged data

low_threshold

option to remove clusters with too few cells

...

additional parameters not used yet

Value

matrix of numeric values, clusters from expr_mat as row names, cell types from ref_mat as column names


NCBI-Hackathons/RClusterCT documentation built on Aug. 5, 2021, 10:48 p.m.