Evaluate the 5 SimBench Biological Signal Proportions

Compares proportions of genes exhibiting DE, DV, DD, DP, and BD between empirical reference and simulated datasets.

Usage

evaluate_simbench_signals(
  ref_mat,
  sim_mat,
  ref_celltypes,
  sim_celltypes,
  p_sig = 0.05,
  bi_cutoff = 0.3
)

Arguments

ref_mat

Reference matrix.

sim_mat

Simulated matrix.

ref_celltypes

Reference cell type labels (subsets to top 2 abundant types).

sim_celltypes

Simulated cell type labels.

p_sig

Significance cutoff (default 0.05).

bi_cutoff

Bimodal index cutoff (default 0.3).

Value

A tidy data.frame comparing biological signal proportions.

Examples

data(example_scrna, package = "scSimEval")
evaluate_simbench_signals(example_scrna$ref, example_scrna$sim,
                          ref_celltypes = example_scrna$cell_types,
                          sim_celltypes = example_scrna$cell_types)
#>               Signal_Type Reference_Prop Simulation_Prop Absolute_Error
#> 1         DE (Mean Shift)      0.0000000      0.08333333     0.08333333
#> 2        DV (Variability)      0.2500000      0.25000000     0.00000000
#> 3       DD (Distribution)      0.0000000      0.03333333     0.03333333
#> 4 DP (Proportion/Dropout)      0.0000000      0.00000000     0.00000000
#> 5      BD (Bimodal Index)      0.3333333      0.31666667     0.01666667