get_similarity {clustifyr} | R Documentation

## Compute similarity of matrices

### Description

Compute similarity of matrices

### Usage

    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

[Package clustifyr version 1.6.0 Index]