Deconvolute with immunedeconv (mouse) — deconvolute_immunedeconv_mouse • spacedeconv

Runs a mouse-specific immunedeconv method on the expression matrix and returns a deconvolution matrix with prefixed column names.

Usage

deconvolute_immunedeconv_mouse(
  spatial_obj,
  method = NULL,
  rmgenes = NULL,
  algorithm = NULL,
  assay_sp = "counts",
  result_name = NULL,
  ...
)

Arguments

spatial_obj: SpatialExperiment.
method: Mouse immunedeconv method token (see spacedeconv::deconvolution_methods).
rmgenes: Genes to remove from the analysis.
algorithm: Statistical algorithm for seqImmuCC (ignored by other methods).
assay_sp: Spatial assay to use.
result_name: Prefix used to label result columns (defaults to method).
...: Additional parameters passed to the selected method.