[R] R package for computing state path using Viterbi algorithm

[Ingmar Visser]

Wuming,
Have a look at the depmix package that implements the viterbi algorithm for
hidden markov models (in discrete time). The function to use is
posterior(...). The package includes a manual with a number of examples.
Hth, Ingmar


> From: Wuming Gong <wuming.gong at gmail.com>
> Date: Wed, 22 Mar 2006 23:18:54 +0800
> To: <r-help at stat.math.ethz.ch>
> Subject: [R] R package for computing state path using Viterbi algorithm
> 
> Dear list,
> 
> This question is about Hidden Markov Model.  Given a transition
> matrix, an emission matrix and a sequence of observed symbols
> (actually, nucleotide sequences, A, T, C and G), I hope to predict the
> sequence of state by Viterbi algorithm.  I searched R repository for
> related packages.  msm package has function viterbi.msm (as well as
> very good document), but it only works for continuous-time condition.
> Other two HMM related packages, hmm.discnp and repeats, however, does
> not have such a function (similar to "hmmviterbi()" function in
> MatLab).
> 
> Is there an R package that implements such a function?
> 
> Thanks,
> 
> Wuming
> 
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