An App for modeling Groundwater treatment system

Please, I am doing a study or research on the treatment of groundwater using biochar and sand.

My aim is to model the treatment system or run some simulations to determine the performance of different woods species for effective treatment while achieving acceptable quantity of treated water for consumption of a rural household. 

I will be grateful if any member could assist me with an app that can be used or adapted for this simulation. Any other support will be greatly appreciated and acknowledged in my publications.

Thank you