kmeans segmentation function
Usage
kmeans_segmentation(
vesalius_assay,
dimensions = seq(1, 3),
col_resolution = 10,
embedding = "last",
verbose = TRUE
)
Arguments
- vesalius_assay
a vesalius_assay
- dimensions
numeric vector of latent space dimensions to use.
- col_resolution
integer or vector of positive integers.
Colour depth used for segmentation.
- embedding
character string describing which embedding should
be used.
- verbose
logical - progress message output.
Value
list containing segmented image as an active embedding and
territory cluster for all barcodes.
Details
Run an interaive kmeans segmentation with the possibility
to run multiple rounds of smoothing.