jphmm-tools 0.1

Tools for extracting information from jpHMM (http://jphmm.gobics.de) output.

jpHMM tools

jphmm_tools provides methods for extracting information from jpHMM [Schulz et al. NAR 2012] output.

It implements tool for

• converting Los Alamos alignment file into a reference file suitable for jpHMM:

jphmm_ref -h

• aligning sequences based on the jpHMM output:

jphmm_align -h

• extracting sequence subtype information from the jpHMM output:

jphmm_subtype -h