model_celltype_freqs: Model Changes in Celltype Frequencies with Dirichlet...

In combiz/scFlow: A Single-Cell/Nuclei Analysis Toolkit

Model Changes in Celltype Frequencies with Dirichlet Multinomial Regression

Description

Model Changes in Celltype Frequencies with Dirichlet Multinomial Regression

Usage

model_celltype_freqs(
  sce,
  unique_id_var = "manifest",
  celltype_var = "cluster_celltype",
  dependent_var = "group",
  ref_class = "Control",
  var_order = NULL,
  confounding_vars = NULL,
  ...
)

Arguments

sce	a SingleCellExperiment object
unique_id_var	the unique identifier variable for each sample
celltype_var	the colData variable specifying celltype or subtype
dependent_var	the name of the colData variable for contrasts
ref_class	the class of dependent_var used as reference
var_order	Optional re-ordering of subset_group factor levels. Default NULL.
confounding_vars	Additional confounding variables from colData.
...	Additional arguments

Value

results_l a list of results

See Also

Other Celltype annotation: find_marker_genes(), map_celltypes_sce()

combiz/scFlow documentation built on Feb. 25, 2024, 10:25 a.m.