WIP: PCCA+

[axsk]

Hey,
this is an implementation of Robust Perron Cluster Cluster Analysis (PCCA+),
an algorithm clustering metastable conformations in Markov Chains,
and before writing further tests and docs I wanted to ask how high my chances are getting this added to Clustering.jl.

I am also working on an module for spatial timeseries clustering (using PCCA+), but I guess this is too specific to be added here?

Best regards
axsk

[johnmyleswhite]

This looks like a really nice implementation.

That said, I'm a little hesitant to add a dependency on Optim to this package. Maybe we can start off with PCCA in a separate package and pull it in later on?

[axsk]

Ok, I will put it to a seperate package.

Actually the algorithm computes a (in some cases sufficient) start-clustering and then optimizes from there on, so the I could make the whole Optim part optional.
But I couldn't find out yet how to handle optional dependencies in Julia.

[axsk]

Closed in favor of the PCCAPlus.jl package