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Viral annotation software tools | Shotgun metagenomic sequencing data analysis

Over the past decade, researchers have begun to characterize viral diversity using metagenomic methods (Mokili et al., 2012; Reyes et al., 2012). These studies have shown that viruses, the majority of which infect bacteria, are probably the most…
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VirFinder
Desktop

VirFinder

Identifies prokaryotic viral sequences from metagenomic data. VirFinder is a…

Identifies prokaryotic viral sequences from metagenomic data. VirFinder is a k-mer based program using machine learning methods to identify sequence signatures. It distinguishes viral sequences from…

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Vipie
Web
Desktop

Vipie

Permits to make parallel characterization of viral population from multiple…

Permits to make parallel characterization of viral population from multiple Next Generation Sequencing (NGS) samples. Vipie is able to perform de-novo assembly, taxonomic classification of viruses as…

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METAVIR
Web

METAVIR

A web server designed to annotate viral metagenomic sequences (raw reads or…

A web server designed to annotate viral metagenomic sequences (raw reads or assembled contigs).

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PHACCS
Desktop

PHACCS

It gives estimates of the structure and diversity of uncultured viral…

It gives estimates of the structure and diversity of uncultured viral communities using metagenomic information.

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VIROME
Web

VIROME

A web-application designed for scientific exploration of metagenome sequence…

A web-application designed for scientific exploration of metagenome sequence data collected from viral assemblages occurring within a number of different environmental contexts.

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ViromeScan
Desktop

ViromeScan

An innovative metagenomic analysis tool that characterizes the taxonomy of the…

An innovative metagenomic analysis tool that characterizes the taxonomy of the virome directly from raw data of next-generation sequencing. ViromeScan uses hierarchical databases for eukaryotic…

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HPViewer
Desktop

HPViewer

Provides a method for specific detection and quantification of human…

Provides a method for specific detection and quantification of human papillomavirus (HPV) from metagenomic data. HPViewer is a HPV detection program that reduces false detection of HPV DNA by masking…

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FastViromeExplo…
Desktop

FastViromeExplorer

Identifies and quantifies the abundance of viruses in metagenomics data.…

Identifies and quantifies the abundance of viruses in metagenomics data. FastViromeExplorer is a stand-alone pipeline that uses kallisto to map short reads to a reference virus database and then…

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EzMap
Desktop

EzMap

Performs metagenomic analysis of the human virome. EzMap combines a number of…

Performs metagenomic analysis of the human virome. EzMap combines a number of tools to clean, filter, and subtract whole-genome sequencing (WGS) reads by mapping to a reference human assembly. It is…

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VIP
Desktop

VIP Virus Identification Pipeline

A one-touch computational pipeline for virus identification and discovery from…

A one-touch computational pipeline for virus identification and discovery from metagenomic NGS data. VIP performs the following steps to achieve its goal: (i) map and filter out background-related…

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Vanator
Desktop

Vanator

A Perl pipeline utilising a large variety of common alignment, assembly and…

A Perl pipeline utilising a large variety of common alignment, assembly and analysis tools to assess the metagenomic profiles of Illumina deep sequencing samples.

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viral_genome_an…
Desktop

viral_genome_annotator

Provides a script for annotating viral genomes.

Provides a script for annotating viral genomes.

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