Article
V-pipe 3.0: a sustainable pipeline for within-sample viral genetic diversity estimation.
GigaScience - 2 Jan 2024
Fuhrmann Lara, Jablonski Kim Philipp, Topolsky Ivan, Batavia Aashil A, Borgsmüller Nico, Baykal Pelin Icer, Carrara Matteo, Chen Chaoran, Dondi Arthur, Dragan Monica, Dreifuss David, John Anika, Langer Benjamin, Okoniewski Michal, du Plessis Louis, Schmitt Uwe, Singer Franziska, Stadler Tanja, Beerenwinkel Niko
Abstract excerpt
The large amount and diversity of viral genomic datasets generated by next-generation sequencing technologies poses a set of challenges for computational data analysis workflows, including rigorous quality control, scaling to large sample sizes, and tailored steps for specific applications. Here, we present V-pipe 3.0, a computational pipeline designed for analyzing next-generation sequencing data of short viral...
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