adjust_counts: adjust count

In patrickCNMartin/Vesalius: Vesalius: Dissecting Tissue Anatomy from Spatial Transcriptomic Data

adjust count

Description

adjust counts after reducing the resolution of the image tensor or after filtering stray beads

Usage

adjust_counts(coordinates, counts, throw = TRUE, verbose = TRUE)

Arguments

coordinates	data frame containing coordinates after reducing resolution and compressing cooridnates
counts	count matrix
throw	logical - throwing warning message for unshared barcodes
verbose	logical if progress messaged should be outputed.

Details

This function will check the coordinate file to see if any barcodes have been merged together. If so, the counts will be adjusted by taking the average count value accross all barcodes that have been merged together.

Value

a count matrix with adjusted count values

patrickCNMartin/Vesalius documentation built on April 17, 2025, 11:31 p.m.