kcgallagher / schnakenberg_sim Goto Github PK

Maybe we say that files which run analysis are prefaced with 'main' in the main directory, or stored as notebooks in the examples directory? All other files in the main directory define functions etc to solve the system? (Or should these be in a separate directory themselves?)

Let me know your thoughts so we can organise something consistent!

Can you guys code up the 1D model covered in the friday lecture? Ruth should have sent through some Fortran code to base this on. Please do this on a separate branch as well to avoid conflicts later!

Currently the readme has equations:

\frac{da}{dt} = a(t)^{2}b(t) - a(t) - n
\frac{db}{dt} = - a(t)^{2}b(t) - m">

where m and n are both negative.

It should really say:

\frac{da}{dt} = a(t)^{2}b(t) - a(t) + n
\frac{db}{dt} = - a(t)^{2}b(t) + m">

where m and n are both positive.

However my plus symbol won't render, so would really appreciate someone else having a go at making this change. Obviously leave it as it is if you can't get the plus to render, as otherwise the equation is definitely wrong!

I feel the plotting for a 1D/2D lattice of different cells might be non-trivial to plot/visualise, and I know how much you love writing plotters (plus I won't have to write tests for this one)

I will code up a simple deterministic model of this, a la https://demonstrations.wolfram.com/TheSchnakenbergReaction/

Bettercode but no coverage or docs yet. I don't think we will do unit tests for a project of this scale