Software Modules

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VAPiD - Viral Annotation Pipeline & iDentification

VAPiD is a portable and lightweight command-line tool that supports annotation and NCBI GenBank deposition of nearly all unsegmented viral genomes. Instructions for downloading and installing VAPiD can be found at Github.

For more information about VAPiD, please check out our published paper here.

CLOMP - Clinically Okay Metagenomics Pipeline

CLOMP is an open source pipeline for taxonomical assignment of metagenomic next-generation sequencing data.

Instructions for downloading and installing CLOMP can be found at Github.

LAVA - Longitudinal Analysis of Viral Alleles

LAVA is a simple command-line tool that allows dynamic and interactive visualization of viral genome evolution from longitudinal or linked samples. LAVA addresses the specific challenges posed by longitudinal sampling for viral infections.

 For more information about LAVA, please visit Github.