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These models are not exactly state machines, they’re usually expressed as systems of differential equations. They’re sometimes expressed as stochastic equation
by bglazer 4y ago
These models are not exactly state machines, they’re usually expressed as systems of differential equations. They’re sometimes expressed as stochastic equations, which are like random state machines, I think.
But yeah, SBML is the standard and there are a number of tools that let you express reactions between bio molecules in easy to read formats. These then output SBML, which is easier to share.
Kind of impressive that academics were able to settle on some real standardization for this field
- amelius 4y agoPerhaps they should be expressed as (analog) electrical circuits. Then you get differential equations in a format that is common and relatively easy to read.
- sampo 4y agoI don't know. I find the differential equations much easier to read than this corresponding electrical circuit. http://seti.harvard.edu/unusual_stuff/misc/lorenz.htm http://seti.harvard.edu/unusual_stuff/misc/lorenz.htm