eighty-twenty news

StoJ gets a home of its own

We've just set up a page for StoJ at lshift.net, subsuming the previous two stories about StoJ and providing a link to a running implementation that can be tried out over the web.

StoJ, an implementation of Stochastic Join

Well, since I wrote about some of the issues in stochastic-π based biological modelling, I've had a little spare time, a little inspiration, and a supportive workplace environment (thanks again, LShift!), and I've implemented StoJ, a polyadic, asynchronous stochastic π calculus with input join and no summation. Rates are associated with a join, not with a cha...

Stochastic Join?

mikeb and I were discussing the papers given at BioConcur the other day, and we were puzzling out the differences between the standard way of modelling biochemical and biological reactions (including genetic interference reactions) and our "alternative" modelling style. I suppose the "alternative" style must have been tried before, and that it must display some obvious weakness we haven't spotted yet.

Here's a comparison of the two styles:

Bi...