moveHMM
Animal Movement Modelling using Hidden Markov Models
Provides tools for animal movement modelling using hidden Markov
models. These include processing of tracking data, fitting hidden Markov models
to movement data, visualization of data and fitted model, decoding of the state
process, etc.
moveHMM 
An R package for analysing animal movement with hidden Markov models.
Get started with the vignettes:
Installation instructions
Stable release
The package is available on CRAN. To install it from CRAN, you can use the following command:
install.packages("moveHMM")
Install from Github
To install the latest (unstable) version of the package from Github:
devtools::install_github("TheoMichelot/moveHMM", build_vignettes = TRUE)
References
Michelot, T., Langrock, R., Patterson, T.A. (2016). moveHMM: An R package for analysing animal movement data using hidden Markov models. Methods in Ecology and Evolution. 7(11), 1308-1315.
Langrock, R., King, R., Matthiopoulos, J., Thomas, L., Fortin, D., & Morales, J. M. (2012). Flexible and practical modeling of animal telemetry data: hidden Markov models and extensions. Ecology, 93(11), 2336-2342.
Patterson, T. A., Basson, M., Bravington, M. V., & Gunn, J. S. (2009). Classifying movement behaviour in relation to environmental conditions using hidden Markov models. Journal of Animal Ecology, 78(6), 1113-1123.