Multi-stage social distancing for NYC simulation

tapios / risk-networks

Code for risk networks: a blend of compartmental models, graphs, data assimilation and semi-supervised learning

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Multi-stage social distancing for NYC simulation #69

Closed lubo93 closed 4 years ago

lubo93 commented 4 years ago

This PR modifies "simulate_idealized_NYC_epidemic.py" to use "EpidemicSimulator" for the NYC simulations.

There are a few changes in "simulate_idealized_NYC_epidemic.py":

health service is being used now
multi-stage distancing interventions can be modeled
new latex-friendly plotting routines

First results on a 10,000 node network:

new_york_cases

tapios commented 4 years ago

Can we find parameters so we get slower growth in the initial phase of the epidemic? That part does not look right, and it is important for us to get right to have a plausible baseline.

lubo93 commented 4 years ago

Can we find parameters so we get slower growth in the initial phase of the epidemic? That part does not look right, and it is important for us to get right to have a plausible baseline.

Yes, this PR is just meant to use the new "EpidemicSimulator" in the NYC simulations. I am working on the parameters. For sure, this is not the final plot that we want to show.

dburov190 commented 4 years ago

@lubo93 This seems like rotten code, and besides, it looks like large parts of it (if not all) were merged already.

Can we close this PR? if not, could you please resolve the conflicts and update it?

lubo93 commented 4 years ago

@lubo93 This seems like rotten code, and besides, it looks like large parts of it (if not all) were merged already.

Can we close this PR? if not, could you please resolve the conflicts and update it?

Yes, this PR can be closed. There is no need to merge it anymore.