MuDoGeR: Multi-Domain Genome recovery from metagenomes made easy

Result code in IS VaVaI

<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F61388971%3A_____%2F24%3A00586162" target="_blank" >RIV/61388971:_____/24:00586162 - isvavai.cz</a>

Result on the web

<a href="https://onlinelibrary.wiley.com/doi/10.1111/1755-0998.13904" target="_blank" >https://onlinelibrary.wiley.com/doi/10.1111/1755-0998.13904</a>

DOI - Digital Object Identifier

<a href="http://dx.doi.org/10.1111/1755-0998.13904" target="_blank" >10.1111/1755-0998.13904</a>

Result language

angličtina

Original language name

MuDoGeR: Multi-Domain Genome recovery from metagenomes made easy

Original language description

Several computational frameworks and workflows that recover genomes from prokaryotes, eukaryotes and viruses from metagenomes exist. Yet, it is difficult for scientists with little bioinformatics experience to evaluate quality, annotate genes, dereplicate, assign taxonomy and calculate relative abundance and coverage of genomes belonging to different domains. MuDoGeR is a user-friendly tool tailored for those familiar with Unix command-line environment that makes it easy to recover genomes of prokaryotes, eukaryotes and viruses from metagenomes, either alone or in combination. We tested MuDoGeR using 24 individual-isolated genomes and 574 metagenomes, demonstrating the applicability for a few samples and high throughput. While MuDoGeR can recover eukaryotic viral sequences, its characterization is predominantly skewed towards bacterial and archaeal viruses, reflecting the field's current state. However, acting as a dynamic wrapper, the MuDoGeR is designed to constantly incorporate updates and integrate new tools, ensuring its ongoing relevance in the rapidly evolving field. MuDoGeR is open-source software available at . Additionally, MuDoGeR is also available as a Singularity container.

Czech name

—

Czech description

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Type

J_imp - Article in a specialist periodical, which is included in the Web of Science database

CEP classification

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OECD FORD branch

10606 - Microbiology

Project

—

Continuities

I - Institucionalni podpora na dlouhodoby koncepcni rozvoj vyzkumne organizace

Publication year

2024

Confidentiality

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

Name of the periodical

Molecular Ecology Resources

ISSN

1755-098X

e-ISSN

1755-0998

Volume of the periodical

24

Issue of the periodical within the volume

2

Country of publishing house

GB - UNITED KINGDOM

Number of pages

12

Pages from-to

13904

UT code for WoS article

001122806600001

EID of the result in the Scopus database

2-s2.0-85177547771