Nuclei Analysis Toolkit

.tally_cells

R Documentation

Tally the cells in each celltype for each unique sample

Description

Tally the cells in each celltype for each unique sample

Usage

.tally_cells(
  sce,
  unique_id_var = "manifest",
  celltype_var = "cluster_celltype",
  ...
)

Arguments

`unique_id_var`	the unique identifier variable for each sample
`celltype_var`	the colData variable specifying celltype or subtype

Value

mat a matrix sample x celltypes with absolute cell numbers

Other helper: .append_cell_metric_plots_sce(), .append_cell_prop_plots_sce(), .clean_ggplot_plot_env(), .clean_ggplot_quosures(), .clean_quosure_env(), .fancy_scientific(), .get_d_palette(), .grobify_ggplot(), .model_fisher_celltype(), .plot_dirichlet_results(), .plot_unique_id_var(), .prepare_dirichlet_plot_table(), .prepare_fisher_counts_table(), .prepare_unique_id_var_plot_table(), .process_dirichlet_fit(), .retrieve_covariates(), .uniftest()