Aggregate Molecules into an Expression Matrix
# S3 method for FOV
aggregate(x, by = NULL, set = NULL, drop = TRUE, ...)# S3 method for Molecules
aggregate(x, by, drop = TRUE, ...)
An expression matrix
An object with spatially-resolved molecule information
Name of a
Segmentation within
object or a
Segmentation object
Name of molecule set to aggregate
Drop molecules not present in a segmentation; if FALSE,
adds a column called “boundless” consisting of molecule counts
not in a segmentation
Arguments passed to other methods
This function uses
progressr to
render status updates and progress bars. To enable progress updates, wrap
the function call in with_progress or run
handlers(global = TRUE) before running
this function. For more details about progressr, please read
vignette("progressr-intro")
This function uses
future to enable
parallelization. Parallelization strategies can be set using
plan. Common plans include “sequential”
for non-parallelized processing or “multisession” for parallel
evaluation using multiple R sessions; for other plans, see the
“Implemented evaluation strategies” section of
?future::plan. For a more thorough introduction
to future, see
vignette("future-1-overview")