Hidden Markov Models inplementation in R or python [closed]

Question

Do you know any good literature and/or tutorials about how to implement HMM in python, R (Bioconductor)? (especially for sequence analysis)

Answer 1

There is the HMM package on CRAN, which might be a good place to start.

http://cran.at.r-project.org/web/packages/HMM/index.html

This is easily found from R itself:

RSiteSearch("HMM")

Answer 2

GHMM for python has a tutorial, but it's short and they admit that "Currently, the GHMM is utterly lacking in documentation."

I like the Rabiner paper.

I have a technical report on the use of HMM for genetic mapping.

I recommend reading a bit of Rabiner and then implementing something. The forward/backward equations are just a few lines.