This is a work in progress.  Together, runProfillic.pl, clusterProfillicAlignmentProfiles.pl, and clusterProfillicAlignmentProfiles.R will use profillic (starting from the input aligned fasta) to generate alignment profiles and then cluster them.
This is a work in progress.  Together, runProfillic.pl, clusterProfillicAlignmentProfiles.pl, and clusterProfillicAlignmentProfiles.R will use profillic (starting from the input aligned fasta) to generate alignment profiles and then cluster them.

pedlefsen/hiv-founder-id,pedlefsen/hiv-founder-id,pedlefsen/hiv-founder-id