The XHMM (eXome-Hidden Markov Model) package uses principal component analysis (PCA) normalization and a hidden Markov model (HMM) to detect and genotype copy number variation (CNV) from normalized read-depth data from targeted sequencing experiments.  




To see what versions of XHMM are available type

module avail xhmm

To see what other modules are needed, what commands are available and how to get additional help type

module help xhmm

To use XHMM, include a command like this in your batch script or interactive session to load the xhmm module:

module load xhmm

Be sure you also load any other modules needed, as listed by the module help xhmm command.