METAVIR statistics

info info

Citations per year

Number of citations per year for the bioinformatics software tool METAVIR
info

Tool usage distribution map

This map represents all the scientific publications referring to METAVIR per scientific context
info info

Associated diseases

This word cloud represents METAVIR usage per disease context
info

Popular tool citations

chevron_left Viral annotation chevron_right
Want to access the full stats & trends on this tool?

Protocols

METAVIR specifications

Information


Unique identifier OMICS_03513
Name METAVIR
Interface Web user interface
Restrictions to use None
Input data Some sequence datasets composed of short reads or assembled contigs.
Output format FASTA
Biological technology Illumina
Programming languages Javascript, Perl, PHP, R
License GNU General Public License version 3.0
Computer skills Basic
Stability Stable
Maintained Yes

Additional information


Users need to register before submit their data.

Publications for METAVIR

METAVIR citations

 (68)
library_books

Overview of Virus Metagenomic Classification Methods and Their Biological Applications

2018
Front Microbiol
PMCID: 5924777
PMID: 29740407
DOI: 10.3389/fmicb.2018.00749

[…] D, Clinical PathoScope, DUDes, EnsembleAssembler, FACS, Kraken, LMAT, Metavir, MetLab, SMART, Taxonomer and Virana), or hours (19 workflows: Giant Virus Finder, GOTTCHA, IMSA, MEGAN, MePIC, MetaShot, Metavir 2, NBC, ProViDE, Readscan, Rega Typing Tool, RIEMS, RINS, SLIM, SURPI, Taxy-Pro, “Unknown pathogens from mixed clinical samples,” VIP and ViromeScan), or even days (5 workflows: Exhaustive Ite […]

library_books

Reducing inherent biases introduced during DNA viral metagenome analyses of municipal wastewater

2018
PLoS One
PMCID: 5882159
PMID: 29614100
DOI: 10.1371/journal.pone.0195350

[…] ST (the Metagenomics RAST) server version 3.5 []. Aw et al. [] (referred to as ‘Aw’) virtigs were retrieved from MG-RAST for re-analysis. Wastewater virtigs from this study and Aw were compared using MetaVir 2 tools (available at metavir-meb.univ.bpclermont.fr) [] and also MG-RAST analysis. Analysis of the virtigs can be re-created at the MetaVir 2 server (i.e., “wastewater phage”). Open reading f […]

library_books

Deciphering the Human Virome with Single Virus Genomics and Metagenomics

2018
Viruses
PMCID: 5869506
PMID: 29509721
DOI: 10.3390/v10030113

[…] m a previous salivary survey [] (maximum length = 349 pb) were reassembled using SPAdes assembler version 3.6.1, with --iontorrent and only-assembler options. General automated annotation was done in metavir [] and JGI-IMG []. Accurate annotation of vSAG 92-C3 was achieved by comparing predicted proteins with the nr database (National Center for Biotechnology Information (NCBI)) using BLAST (Basic […]

call_split

Exploring Viral Diversity in a Unique South African Soil Habitat

2018
Sci Rep
PMCID: 5758573
PMID: 29311639
DOI: 10.1038/s41598-017-18461-0
call_split See protocol

[…] an N50 of 2,047 and a maximum of 47,854 bases.The processed reads were assembled de novo using CLC Genomics Workbench version 6.0.1 using the default settings. Reads and contigs were uploaded to the MetaVir (http://metavir-meb.univ-bpclermont.fr), VIROME (http://virome.dbi.udel.edu/) and MG-RAST (http://metagenomics.anl.gov/) servers for virus diversity estimations. The viromes were uploaded in 2 […]

call_split

Metavirome Sequencing of the Termite Gut Reveals the Presence of an Unexplored Bacteriophage Community

2018
Front Microbiol
PMCID: 5759034
PMID: 29354098
DOI: 10.3389/fmicb.2017.02548
call_split See protocol

[…] sembler (Version 3.0) available on the Illumina BaseSpace platform with the default parameters using error correction and assembly mode (Bankevich et al., ). The contigs obtained were uploaded on the Metavir server for taxonomic assignments of the predicted ORFs using RefSeq complete viral genome protein sequence database from NCBI (released on 01/11/2017) (Roux et al., ). All the predicted protei […]

library_books

Characterization of ecologically diverse viruses infecting co occurring strains of cosmopolitan hyperhalophilic Bacteroidetes

2017
PMCID: 5776456
PMID: 29099492
DOI: 10.1038/ismej.2017.175

[…] arge contigs (over 20 kb) that were then merged as described in . Functional annotation of predicted genes from virus metagenomes were carried out using JGI (IMG/M ER: http://img.jgi.doe.gov/mer) and MetaVir (). […]


Want to access the full list of citations?
METAVIR institution(s)
Laboratoire Microorganismes: Génome et Environnement, Clermont Université, Université Blaise Pascal, Clermont-Ferrand, France; CNRS, UMR 6023, LMGE, Aubiere, France; Centre Régional de Ressources Informatiques, Clermont Université, Université Blaise Pascal, Clermont-Ferrand, France
METAVIR funding source(s)
Supported by a PhD grant from the French defense procurement agency (DGA, Direction Générale de l’Armement).

METAVIR reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review METAVIR