To install, run pip install -e . in this directory.
from BNMPy import booleanNetwork as bn
from BNMPy import BMatrix
file = 'input_files/pancreatic_vundavilli_2020_fig3.txt'
equations = BMatrix.get_equations(file)
gene_dict = BMatrix.get_gene_dict(equations)
upstream_genes = BMatrix.get_upstream_genes(equations)
connectivity_matrix = BMatrix.get_connectivity_matrix(equations, upstream_genes, gene_dict)
truth_table = BMatrix.get_truth_table(equations, upstream_genes)
ngenes = len(equations)
# initial state
x0 = np.random.randint(2, size=ngenes) #random inital state
x0 = np.array(x0)
network = bn.BooleanNetwork( ngenes , connectivity_matrix, truth_table, x0 ) # create a Boolean network object
noise_level = 0.05 # noise
y = network.update_noise ( noise_level , 200000) # simulation with noise