Generalized Pair Hidden Markov Model (GPHMM)

This package trains a GPHMM and computes GPHMM probabilities.

The model will is described in details in https://www.biorxiv.org/content/early/2017/12/04/228619.

install.packages('gphmm')

Note that gphmm package need compilation of C++ code.

Installing from CRAN is recommended. However, if you want to install the version from GitHub, you can do so with the following lines of code

library(devtools)
install_github("fperraudeau/gphmm")