Source code and simulation datasets for the paper 'Migration and accumulation of bacteria with chemotaxis and chemokinesis'

Source code and simulation data files for the paper 'Migration and accumulation of bacteria with chemotaxis and chemokinesis'

The zipped folder 'SimulationCode.zip' contains Matlab source code files which have been used to generate the simulations in the paper: fixed attractant gradient, axisymmetric agar-plate like migration and transient attractant source. The file 'main.m' controls all simulations run with initial conditions specified in the files with suffix '_ic'. The file 'PDEsolver.m' specifies the finite difference solver used so solve the model PDEs, while 'FourthOrderFD.m' creates the matrices that are required
for the finite differnce solver. The chosen scheme is of fourth order accuracy.

The zipped folder 'SimulationData.zip' contains Matlab data files generated by running the simulation code. The results correspont to the figures in the paper.