magnus93/epidemic-css-abm

Agent Based SEIR simulation model made in python

#Epidemic CSS and ABM models

This repo consists of several CSS and ABM files based on the same Conceptual Model.

The ABM models are written in Python and the CCS (SSD files) can be run in StochSD.

##Set seed to models according to:

model	SEED
SIR	NONE
SIRt	1232
SEIRt	1233
SEI3Rt	1234
2SEI3Rt	1235
2SEI3Rti	1236
2SEI3Rtip	1237
2SEI3RtipA	1238
2SEI3RtipAe	1239
2SEI3RtipAed	12310

##Run ABM

Go into any of the files labeled SIRt to 2SEI3RtipAed and run python collector.py 10000 output.csv.

This will create and save a csv file containing 10 000 data points.

##CSS (StochSD and StatRes)

Open StochSD and open the model desired model.

Open StatRes and and add variable Epidemic, Duration, Rt and Extinction to the list

Select seed-of-seeds according to the table above.

Run the model for 10 000 replications and then export the data to a CSV file.

##Get Statistical Results

Get statistical Results by running one of the fore mentioned csv files using:

python stats.py [model_type] [filename.csv]

Where [model_type] is SIRt, SEIRt, etc.

And filename.csv is the desired data file containing 10 000 data points.