get_dtw_dist_mat {pGRN}

DTW distance matrix for all genes

Description

Get DTW distance matrix for all genes using pseudotime based sliding window transfromation, parallel computing allowed.

Usage

get_dtw_dist_mat(
  data,
  ptime,
  slide_window_size = 50,
  slide_step_size = 25,
  cores = 2
)

Arguments

data

gene expression matrix (Gene * Cells)

ptime

pseudotime matched with the column cells of the gene expression matrix

slide_window_size

sliding window size

slide_step_size

sliding window step size

cores

number of cores for parallel computing

Value

bidirectional DTW distance matrix

Examples

example_data <- pGRNDB
expression_matrix <- example_data[["expression"]]
pseudotime_list <- example_data[["ptime"]]$PseudoTime
dtw_dist_matrix <- get_dtw_dist_mat(expression_matrix,
                                    pseudotime_list,
                                    cores=1)