get_signal: get cell signal from vesalius assays

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

get cell signal from vesalius assays

Description

get cell signal from vesalius assays

Usage

get_signal(
  seed_assay,
  query_assay,
  signal,
  dimensions = seq(1:30),
  use_norm = "raw",
  scale = FALSE,
  verbose = TRUE
)

Arguments

seed_assay	vesalius_assay object
query_assay	vesalius_assay object
signal	character string where the signal should be taken from
dimensions	int vector - if signal is embeddings which embeddings should be selected
use_norm	charcater string which counts should be use when extracting signal
scale	logical - should signal be scaled
verbose	logical - should progress messages be outputed.

Value

list contain seed signal, query signal and features used

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