Kaan Öcal

icon indicating a website link kaandocal.github.io

icon location University of Edinburgh icon location PhD candidate working on modelling and inference for stochastic biochemical systems.

Results 24 issues of Kaan Öcal

Seeding ensemble problems

8 comment

I have been going through the code & documentation of `JumpProcesses` in order to find out how to set up reproducible (RNG seeded) ensemble runs. The following snippet yields the...

question

Explicitly mark variable-rate reactions

8 comment

I'm currently implementing a model where some species evolve according to ODEs and some according to the SSA. This causes some reactions to have variable rates (due to the ODEs),...

bug

Symbolic indexing

It would be nice to use `SymbolicIndexingInterface.jl` to enable indexing such as ```julia sol[rn.A^2 * rn.B] ``` to extract the moment `E[A^2 B]`.

Update to work with newer Catalyst versions