*4.1.3. QuasiRecomb*

Principle: It employs the jumping Hidden Markov Model (HMM)-based probabilistic statistics for inference of viral quasispecies, especially for estimating the intra-patient viral haplotype distribution [75]. This method assumes that the true genetic diversity is generated by a few sequences (called generators) through mutation and recombination, and that the observed diversity results from additional sequencing errors.

Algorithm steps:

