added simple forward/backward example using numpy
Started working theano-based hmm example
Added example with theano (still missing scan)
added files in trans/ directory
Working versions of obs and trans
switched obs to use map only. need to add multi-matrix to trans
Added comments to obs & trans
cleaned up repo
Updated readme
Added Pymc mcmc objects for observation process and calculation of gravity
Added working step method for latent state in transmission model
Added trans.py to version control (for some reason it was missing?)
and vector valued state autocorrelation to mcmc.py
added time constant predictors to mcmc.py
cleanup
Fixed trans.py so that exposure is not dependent on underlying state for latent occupancy model
Added explicitly multi-pathogen tools
Added methods for multipathogen
Changes to multipathogen code
sync
added obs process to version control