bimol_train_stoch_sim

Generate training data for bimolecular annihilation A+A->0

For the reaction A + A -> 0.

Create data directories

Run the included Python scripts

python create_data_dirs.py

Running

First use cmake:

mkdir build
cd build
cmake ..

Stochastic simulations

From the build directory:

make main
cd ../bin
./main

They can be visualized with the visualize_lattice notebook in the mathematica directory.

The first moments in the data can be visualized using the moments notebook.

Learning initial conditions

From the build directory:

make learn_ic
cd ../bin
./learn_ic

The progress can be monitored with the monitor_progress_learn_ic notebook in the mathematica directory.

The final learned points can be visualized using the ic_learned notebook.

Paper figures

Can be generated using the figures notebook in the mathematica directory. In particular:

• visualize_lattice generates two example lattices.
• moments visualizes the first moment of the data.