An amplicon-based sequencing framework for accurately measuring intrahost virus diversity using PrimalSeq and iVar
N. D. Grubaugh, K. Gangavarapu, J. Quick, N. L. Matteson, J. Goes De Jesus, B. J. Main, A. L. Tan, L. M. Paul, D. E. Brackney, S. Grewal, N. Gurfield, K. K. Van Rompay, S. Isern, S. F. Michael, L. L. Coffey, , K. G. Andersen
The paper evaluates PrimalSeq for measuring intrahost virus diversity, showing how factors like sequencing coverage and primer mismatches affect accuracy.
bioRxiv · Aug 5, 2018Evolutionary Biology