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Title: Viral Annotation Pipeline in KBase

Abstract

This data analysis workflow demonstrates how to process a metagenome to identify viruses using VirSorter. Then, provides taxonomic classification using vConTACT2.

Authors:
ORCiD logo [1]; ORCiD logo [2]; ORCiD logo [2]; ORCiD logo [3]
  1. The Ohio State Univ., Columbus, OH (United States)
  2. Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)
  3. Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States)
Publication Date:
Research Org.:
Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); The Ohio State Univ., Columbus, OH (United States); U.S. Department of Energy Systems Biology Knowledgebase; Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States)
Sponsoring Org.:
USDOE Office of Science (SC), Biological and Environmental Research (BER)
OSTI Identifier:
1635154
DOE Contract Number:  
AC02-05CH11231, AC02-06CH11357, AC05-00OR22725,
Resource Type:
Data
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES; Virus; Genomics; Bioinformatics

Citation Formats

Bolduc, Benjamin, Wood-Charlson, Elisha, Dehal, Paramvir, and Crockett, Zachary. Viral Annotation Pipeline in KBase. United States: N. p., 2020. Web. doi:10.25982/59912.37/1635154.
Bolduc, Benjamin, Wood-Charlson, Elisha, Dehal, Paramvir, & Crockett, Zachary. Viral Annotation Pipeline in KBase. United States. https://doi.org/10.25982/59912.37/1635154
Bolduc, Benjamin, Wood-Charlson, Elisha, Dehal, Paramvir, and Crockett, Zachary. Sun . "Viral Annotation Pipeline in KBase". United States. https://doi.org/10.25982/59912.37/1635154. https://www.osti.gov/servlets/purl/1635154.
@article{osti_1635154,
title = {Viral Annotation Pipeline in KBase},
author = {Bolduc, Benjamin and Wood-Charlson, Elisha and Dehal, Paramvir and Crockett, Zachary},
abstractNote = {This data analysis workflow demonstrates how to process a metagenome to identify viruses using VirSorter. Then, provides taxonomic classification using vConTACT2.},
doi = {10.25982/59912.37/1635154},
url = {https://www.osti.gov/biblio/1635154}, journal = {},
number = ,
volume = ,
place = {United States},
year = {2020},
month = {6}
}

Works referenced in this record:

Prokka: rapid prokaryotic genome annotation
journal, March 2014


Taxonomic assignment of uncultivated prokaryotic virus genomes is enabled by gene-sharing networks
journal, May 2019


VirSorter: mining viral signal from microbial genomic data
journal, January 2015


KBase: The United States Department of Energy Systems Biology Knowledgebase
journal, July 2018


VirSorter: mining viral signal from microbial genomic data
journal, January 2015


    Works referencing / citing this record:

    KBase: The United States Department of Energy Systems Biology Knowledgebase
    journal, July 2018


    VirSorter: mining viral signal from microbial genomic data
    journal, January 2015


    Prokka: rapid prokaryotic genome annotation
    journal, March 2014


    Taxonomic assignment of uncultivated prokaryotic virus genomes is enabled by gene-sharing networks
    journal, May 2019