.gitignore
DESCRIPTION
LICENSE
LICENSE.md
NAMESPACE
R/RcppExports.R
R/backward_logprobabilities.R
R/backward_probabilities.R
R/em.R
R/em_binom.R
R/em_exponential.R
R/em_normal.R
R/em_poisson.R
R/forward_logprobabilities.R
R/forward_probabilities.R
R/hmm-package.R
R/hmm.R
R/local_decoding.R
R/misc_methods.R
R/plot.R
R/sim_hmm.R
R/simulate.R
R/state_prediction.r
R/viterbi.R
README.md
Rplots.pdf
docs/404.html
docs/LICENSE-text.html
docs/LICENSE.html
docs/_config.yml
docs/articles/hmm.html
docs/articles/hmm_files/figure-html/unnamed-chunk-3-1.png
docs/articles/hmm_files/figure-html/unnamed-chunk-3-2.png
docs/articles/hmm_files/figure-html/unnamed-chunk-3-3.png
docs/articles/hmm_files/figure-html/unnamed-chunk-3-4.png
docs/articles/hmm_files/figure-html/unnamed-chunk-4-1.png
docs/articles/hmm_files/figure-html/unnamed-chunk-5-1.png
docs/articles/hmm_files/figure-html/unnamed-chunk-5-2.png
docs/articles/hmm_files/figure-html/unnamed-chunk-5-3.png
docs/articles/hmm_files/figure-html/unnamed-chunk-5-4.png
docs/articles/hmm_files/figure-html/unnamed-chunk-6-1.png
docs/articles/hmm_files/figure-html/unnamed-chunk-7-1.png
docs/articles/hmm_files/figure-html/unnamed-chunk-8-1.png
docs/articles/hmm_files/figure-html/unnamed-chunk-9-1.png
docs/articles/hmm_files/figure-html/unnamed-chunk-9-2.png
docs/articles/hmm_files/figure-html/unnamed-chunk-9-3.png
docs/articles/hmm_files/figure-html/unnamed-chunk-9-4.png
docs/articles/hmm_files/figure-html/unnamed-chunk-9-5.png
docs/articles/index.html
docs/authors.html
docs/bootstrap-toc.css
docs/bootstrap-toc.js
docs/docsearch.css
docs/docsearch.js
docs/index.html
docs/link.svg
docs/pkgdown.css
docs/pkgdown.js
docs/pkgdown.yml
docs/reference/AIC.hmm.html
docs/reference/Rplot001.png
docs/reference/Rplot002.png
docs/reference/Rplot003.png
docs/reference/Rplot004.png
docs/reference/em.html
docs/reference/fitted.hmm.html
docs/reference/forward_probabilities.html
docs/reference/hmm.html
docs/reference/index.html
docs/reference/l_decoding.html
docs/reference/param_table.html
docs/reference/plot.hmm-1.png
docs/reference/plot.hmm-2.png
docs/reference/plot.hmm-3.png
docs/reference/plot.hmm-4.png
docs/reference/plot.hmm.html
docs/reference/print.hmm.html
docs/reference/print.summary.hmm-1.png
docs/reference/print.summary.hmm-2.png
docs/reference/print.summary.hmm-3.png
docs/reference/print.summary.hmm-4.png
docs/reference/print.summary.hmm.html
docs/reference/residuals.hmm-1.png
docs/reference/residuals.hmm-2.png
docs/reference/residuals.hmm-3.png
docs/reference/residuals.hmm-4.png
docs/reference/residuals.hmm.html
docs/reference/sim_hmm.html
docs/reference/simulate.hmm-1.png
docs/reference/simulate.hmm-2.png
docs/reference/simulate.hmm-3.png
docs/reference/simulate.hmm-4.png
docs/reference/simulate.hmm.html
docs/reference/summary.hmm-1.png
docs/reference/summary.hmm-2.png
docs/reference/summary.hmm-3.png
docs/reference/summary.hmm-4.png
docs/reference/summary.hmm.html
docs/reference/viterbi.html
docs/reqspec.html
docs/roadmap.html
docs/sitemap.xml
examples.R
hmm.Rproj
man/AIC.hmm.Rd
man/em.Rd
man/fitted.hmm.Rd
man/forward_probabilities.Rd
man/hmm.Rd
man/l_decoding.Rd
man/param_table.Rd
man/plot.hmm.Rd
man/print.hmm.Rd
man/print.summary.hmm.Rd
man/residuals.hmm.Rd
man/sim_hmm.Rd
man/simulate.hmm.Rd
man/summary.hmm.Rd
man/viterbi.Rd
reqspec.md
roadmap.md
src/.gitignore
src/RcppExports.cpp
src/backward_loglikelihood.cpp
src/backward_prob.cpp
src/forward_loglikelihood.cpp
src/forward_prob.cpp
src/update_gamma.cpp
vignettes/.gitignore
vignettes/hmm.Rmd