An introduction to V-pipe

V-pipe is a computational pipeline for processing viral next-generation sequencing data and analyzing mixed virus populations.

Get Started with V-pipe

Release of V-pipe 3.0

We’re thrilled to announce the release of V-pipe 3.0!

V-pipe 3.0 enables sustainable viral genomic data science. You can check out the published paper on our work in GigaScience.

Get the paper!

Applying V-pipe to SARS-Coronavirus-2 data

Webinar demonstrating the use of V-pipe on SARS-Coronavirus-2 samples.

Applying V-pipe

Vpipe featuring VILOCA

VIral LOcal haplotype reconstruction and mutation CAlling for short and long read data

VILOCA is designed to analyze genetically heterogeneous samples. It facilitates error correction and local haplotype reconstruction in a mixed sample.

VILOCA

Vpipe featuring COJAC

CoOccurrence adJusted Analysis and Calling

COJAC analyzes co-occurrence of mutations on amplicons for early detection of viral variants of concern in wastewater samples. doi:10.1038/s41564-022-01185-x

COJAC

Vpipe featuring LolliPop

LolliPop can deconvolve viral variants and estimate their relative abundance. It is robust to noise and leverages time series data. doi:10.1101/2022.11.02.22281825

LolliPop