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Section: Genomics
Topic: Genetics/Genomics

CulebrONT: a streamlined long reads multi-assembler pipeline for prokaryotic and eukaryotic genomes

Orjuela, Julie1, 2, 3   ; Comte, Aurore2, 3  ; Ravel, Sébastien2, 3  ; Charriat, Florian2, 3 ; Vi, Tram2, 4 ; Sabot, François 1, 3 ; Cunnac, Sébastien 2, 3 
1 DIADE Unit, University of Montpellier, CIRAD, IRD – Montpellier Cedex 5, France
2 PHIM Plant Health Institute, University of Montpellier, CIRAD, INRAE, Institut Agro, IRD – Montpellier, France
3 IFB - South Green Bioinformatics Platform, Bioversity, CIRAD, INRAE, IRD – Montpellier, France
4 Agricultural Genetics Institute, Vietnam Academy of Agricultural Sciences – Hanoi, Vietnam

10.24072/pcjournal.153 - Peer Community Journal, Volume 2 (2022), article no. e46.

Get full text PDF Peer reviewed and recommended by PCI

Using long reads provides higher contiguity and better genome assemblies. However, producing such high quality sequences from raw reads requires to chain a growing set of tools, and determining the best workflow is a complex task.

Published online:
DOI: 10.24072/pcjournal.153
Type: Software tool
Orjuela, Julie 1, 2, 3; Comte, Aurore 2, 3; Ravel, Sébastien 2, 3; Charriat, Florian 2, 3; Vi, Tram 2, 4; Sabot, François  1, 3; Cunnac, Sébastien  2, 3

1 DIADE Unit, University of Montpellier, CIRAD, IRD – Montpellier Cedex 5, France
2 PHIM Plant Health Institute, University of Montpellier, CIRAD, INRAE, Institut Agro, IRD – Montpellier, France
3 IFB - South Green Bioinformatics Platform, Bioversity, CIRAD, INRAE, IRD – Montpellier, France
4 Agricultural Genetics Institute, Vietnam Academy of Agricultural Sciences – Hanoi, Vietnam
License: CC-BY 4.0
Copyrights: The authors retain unrestricted copyrights and publishing rights 
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     title = {CulebrONT: a streamlined long reads multi-assembler pipeline for prokaryotic and eukaryotic genomes},
     journal = {Peer Community Journal},
     eid = {e46},
     publisher = {Peer Community In},
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Orjuela, Julie; Comte, Aurore; Ravel, Sébastien; Charriat, Florian; Vi, Tram; Sabot, François ; Cunnac, Sébastien . CulebrONT: a streamlined long reads multi-assembler pipeline for prokaryotic and eukaryotic genomes. Peer Community Journal, Volume 2 (2022), article  no. e46. doi : 10.24072/pcjournal.153. https://peercommunityjournal.org/articles/10.24072/pcjournal.153/

Peer reviewed and recommended by PCI : 10.24072/pci.genomics.100018

Conflict of interest of the recommender and peer reviewers:
The recommender in charge of the evaluation of the article and the reviewers declared that they have no conflict of interest (as defined in the code of conduct of PCI) with the authors or with the content of the article.

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