ViruSpy: a pipeline for viral identification from metagenomic samples

Result code in IS VaVaI

<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F00216305%3A26220%2F17%3APR29099" target="_blank" >RIV/00216305:26220/17:PR29099 - isvavai.cz</a>

Result on the web

<a href="https://github.com/NCBI-Hackathons/ViruSpy" target="_blank" >https://github.com/NCBI-Hackathons/ViruSpy</a>

DOI - Digital Object Identifier

—

Result language

angličtina

Original language name

ViruSpy: a pipeline for viral identification from metagenomic samples

Original language description

ViruSpy is a pipeline designed for virus discovery from metagenomic sequencing data available in NCBI’s SRA database. The first step identifies viral reads in the metagenomic sample with Magic-BLAST, which allows this step without needing to download the (often quite large) metagenomic dataset. The extracted raw reads are assembled into contigs using MEGAHIT and annotated for genes by Glimmer and for conserved domains by RPS-tBLASTn. Following annotation, the Building Up Domains (BUD) algorithm allows us to tell whether the viral genomes are non-native (i.e. integrated) to a host genome.

Czech name

—

Czech description

—

Type

R - Software

CEP classification

—

OECD FORD branch

10606 - Microbiology

Project

—

Continuities

S - Specificky vyzkum na vysokych skolach

Publication year

2017

Confidentiality

S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

Internal product ID

ViruSpy

Technical parameters

https://github.com/NCBI-Hackathons/ViruSpy

Economical parameters

(0)

Owner IČO

—

Owner name

Ústav biomedicínského inženýrství