simulateCellscelda_C {celda} | R Documentation |
Generates a simulated counts matrix, cell subpopulation clusters, and sample labels according to the generative process of the celda_C model.
simulateCellscelda_C( model, S = 5, CRange = c(50, 100), NRange = c(500, 1000), G = 100, K = 5, alpha = 1, beta = 1, seed = 12345, ... )
model |
Character. Options available in 'celda::availableModels'. |
S |
Integer. Number of samples to simulate. Default 5. |
CRange |
Vector of length 2 given the range (min, max) of number of cells for each sample to be randomly generated from the uniform distribution. Default c(50, 100). |
NRange |
Integer vector. A vector of length 2 that specifies the lower and upper bounds of the number of counts generated for each cell. Default c(500, 1000). |
G |
Integer. The total number of features to be simulated. Default 100. |
K |
Integer. Number of cell populations. Default 5. |
alpha |
Numeric. Concentration parameter for Theta. Adds a pseudocount to each cell population in each sample. Default 1. |
beta |
Numeric. Concentration parameter for Phi. Adds a pseudocount to each feature in each cell population. Default 1. |
seed |
Integer. Passed to with_seed. For reproducibility, a default value of 12345 is used. If NULL, no calls to with_seed are made. |
... |
Additional parameters. |
List. Contains the simulated matrix 'counts', cell population clusters 'z', sample assignments 'sampleLabel', and input parameters.
'celda_G()' for simulating feature modules and 'celda_CG()' for simulating feature modules and cell populations.
celdaCSim <- simulateCells(model = "celda_C", K = 10) simCounts <- celdaCSim$counts