Full-Length Envelope Analyzer (FLEA): A tool for longitudinal analysis of viral amplicons.

ABSTRACT: Next generation sequencing of viral populations has advanced our understanding of viral population dynamics, the development of drug resistance, and escape from host immune responses. Many applications require complete gene sequences, which can be impossible to reconstruct from short reads. HIV env, the protein of interest for HIV vaccine studies, is exceptionally challenging for long-read sequencing and analysis due to its length, high substitution rate, and extensive indel variation. While long-read sequencing is attractive in this setting, the analysis of such data is not well handled by existing methods. To address this, we introduce FLEA (Full-Length Envelope Analyzer), which performs end-to-end analysis and visualization of long-read sequencing data. FLEA consists of both a pipeline

SUBMITTER: Eren K 

PROVIDER: S-EPMC6314628 | biostudies-literature | 2018 Dec

REPOSITORIES: biostudies-literature