Taming the Zoo of Discrete HMM Subspecies & Some of their Relatives

The following example programs for HMM subspecies written for PRISM are available.

Notice that these programs need autoAnnotation system on top of PRISM for efficient prediction. Unfortunately, there is no good manual for autoAnnotations, but this will be added "soon."

hmmBasic, a simplest HMM, head-and-tail
hmmSilentState
hmmDuration
hmmHigherOrder
hmmPair
hmmHierarchical
hmmFactorial
hmmBayesianCoupled
hmmPseudoknotContinuationStyle
hmmPseudoknotDiffList
hmmConstrained