get_similarity {clustifyr} | R Documentation |
Compute similarity of matrices
get_similarity( expr_mat, ref_mat, cluster_ids, compute_method, per_cell = FALSE, rm0 = FALSE, if_log = TRUE, low_threshold = 0, ... )
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 |
matrix of numeric values, clusters from expr_mat as row names, cell types from ref_mat as column names