Create spatial vectors for clusters
Usage
.get_cluster_vectors(
cluster_info,
bin_length,
bin_type,
bin_param,
range_list,
sample_names
)
Arguments
- cluster_info
A dataframe/matrix containing the centroid coordinates, cluster label and sample for each cell.The column names must include "x" (x coordinate), "y" (y coordinate), "cluster" (cluster label) and "sample" (sample).
- bin_length
A positive integer giving the length of total bins
- bin_type
A string indicating which bin shape is to be used for vectorization. One of "square" (default), "rectangle", or "hexagon".
- bin_param
A numeric vector indicating the size of the bin. If the
bin_type
is "square" or "rectangle", this will be a vector of length two giving the numbers of rectangular quadrats in the x and y directions. If thebin_type
is "hexagonal", this will be a number giving the side length of hexagons. Positive numbers only.- range_list
A named list of spatial ranges for each sample. Each element should be a list with two components:
w_x
andw_y
, which are numeric vectors of length 2 specifying the x- and y-axis ranges (e.g., from cell or transcript coordinates). The range is calculated with 5 within the window.- sample_names
a vector of strings giving the sample names