I’ve got a fun class going this quarter, on “artificial intelligence for health metricians”, and the course content mixed with some of the student interest has got me looking at the options for doing Gaussian process regression in Python. `PyMC2` has some nice stuff, but the `sklearn` version fits with the rest of my course examples more naturally, so I’m using that instead.
But `sklearn` doesn’t have the fanciest of fancy covariance functions implemented, and at IHME we have been down the road of the Matern covariance function for over five years now. It’s in `PyMC`, so I took a crack at mash-up. (Took a mash at a mash-up?) There is some room for improvement, but it is a start. If you need to do non-parametric regression for something that is differentiable more than once, but less than infinity times, you could try starting here: http://nbviewer.ipython.org/gist/aflaxman/af7bdb56987c50f3812b
p.s. Chris Fonnesbeck has some great notes on doing stuff like this and much more here: http://nbviewer.ipython.org/github/fonnesbeck/Bios366/blob/master/notebooks/Section5_1-Gaussian-Processes.ipynb
Healthy Algorithms 