View source: R/5_gold_standard.R
generate_gold_standard | R Documentation |
generate_gold_standard()
runs simulations in order to determine the gold standard
of the simulations.
gold_standard_default()
is used to configure parameters pertaining this process.
generate_gold_standard(model) gold_standard_default( tau = 30/3600, census_interval = 10/60, simulate_targets = FALSE )
model |
A dyngen intermediary model for which the kinetics of the feature network has been generated with |
tau |
The time step of the ODE algorithm used to generate the gold standard. |
census_interval |
A granularity parameter of the gold standard time steps. Should be larger than or equal to |
simulate_targets |
Also simulate the targets during the gold standard simulation |
A dyngen model.
dyngen on how to run a complete dyngen simulation
model <- initialise_model( backbone = backbone_bifurcating(), gold_standard = gold_standard_default(tau = .01, census_interval = 1) ) data("example_model") model <- example_model %>% generate_gold_standard() plot_gold_simulations(model) plot_gold_mappings(model) plot_gold_expression(model)
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