Two analyses of the same code yielded different results

[februaryfang]

Hello,

I run the same code by twice. I did not change anything. And I set the same seed number like your examples.
But I got the different result of "true_cell_top_idx" for each cell. Is this a bug? Or is it because of the permutation test method?

Best

[fl-yu]

Hi thank you for using our tool! This is a tricky problem that we are still thinking about how to resolve it properly. We realized that setting a seed is not enough.

Given that network propagation is a stochastic process at each step of the iteration, the probability (information) of each cell can be different even if a stationary state of the entire cell-to-cell network is reached. Although two independent analyses with the same settings result in different true_cell_top_idx, I believe the differences should be very subtle and will not affect the following analysis.
Please let me know if have any other questions.