R/compute_density.R
compute_density_from_table.RdCompute cell density from a table of cell counts and a table of tissue areas.
compute_density_from_table(counts, areas, tissue_categories, .by = "Slide ID")A data frame with columns for .by, Tissue Category,
and counts, such as the output of count_phenotypes.
A data frame containing tissue areas
in \(cells / micron^2\) with
sample names and tissue categories matching counts.
A character vector of tissue category names of interest.
Column to aggregate by
A data table with counts converted to density in \(cells / mm^2\).
Other aggregation functions:
compute_density_from_cell_summary(),
compute_h_score_from_score_data(),
compute_h_score(),
compute_mean_expression_many(),
compute_mean_expression(),
compute_positivity_many(),
compute_positivity(),
count_phenotypes(),
counts_to_percents()