dynamo.sim.Simulator
- dynamo.sim.Simulator(motif='neurongenesis', seed_num=19491001, clip=None, cell_num=5000)[source]
Simulate the gene expression dynamics via deterministic ODE model
- Parameters:
motif (
str
) – str (default: “neurongenesis”) Name of the network motif that will be used in the simulation. Can be one of {“neurongenesis”, “toggle”, “two_genes”, “Ying”, “mixture_of_gaussian”, “four_attractors”}. The last three models are equivalent.clip (
Optional
[bool
]) – Whether to clip data points that are negative.cell_num (
int
) – Number of cells to simulate.
- Returns:
an Annodata object containing the simulated data.
- Return type:
adata