The function grn_from_human was not working. To correct the bug, I download the Regulatory Directions from RegNetwork and use networkx to perform the network manipulation.
Additional changes
I changed the function that removes cycles to reduce the number of links removed . I also change the method that performs sampling to keep the network connected if possible.
New functionality
Furthermore, I create the grn_from_networkx function that allows more flexibility in using a custom topology for simulations.
Finally, I implemented a minimal working example on a jupyter notebook
The function
grn_from_humanwas not working. To correct the bug, I download the Regulatory Directions from RegNetwork and use networkx to perform the network manipulation.Additional changes
I changed the function that removes cycles to reduce the number of links removed . I also change the method that performs sampling to keep the network connected if possible.
New functionality
Furthermore, I create the
grn_from_networkxfunction that allows more flexibility in using a custom topology for simulations.Finally, I implemented a minimal working example on a jupyter notebook