Identifiant pérenne de l'ensemble de données
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doi:10.23708/TBPNWJ |
Date de publication
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2022-03-08 |
Titre
| Source code of CulebrONT: a streamlined long reads multi-assembler pipeline for prokaryotic and eukaryotic genomes |
URL alternative
| https://culebront-pipeline.readthedocs.io/en/2.1.1/ |
Autre identifiant
| Bioversity, CIRAD, INRAe, IRD: South Green platform https://southgreenplatform.github.io/trainings/contact/
IFB - French Institut of Bioinformatics |
Auteur
| Orjuela, Julie (UMR DIADE - IRD, University of Montpellier, CIRAD - France) - ORCID: 0000-0001-8387-2266
Comte, Aurore (UMR PHIM - IRD, University of Montpellier, CIRAD, INRAe, Agro Institut - France) - ORCID: 0000-0002-6891-5739
Ravel, Sébastien (UMR PHIM - CIRAD, University of Montpellier, IRD, INRAe, Agro Institut - France) - ORCID: 0000-0001-6663-782X
Charriat, Florian (UMR PHIM - INRAe, University of Montpellier, IRD, CIRAD, Agro Institut - France) - ORCID: 0000-0001-9485-4119
Vi, Tram (UMR DIADE - IRD, University of Montpellier, CIRAD - France) 0000-0002-4319-5544
Sabot, François (UMR DIADE - IRD, University of Montpellier, CIRAD - France) - ORCID: 0000-0002-8522-7583
Cunnac, Sébastien (UMR PHIM - IRD, University of Montpellier, CIRAD, INRAe, Agro Institut - France) - ORCID: 0000-0002-3695-491X |
Contact
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Utiliser le bouton d'email ci-dessus pour joindre le contact.
Orjuela, Julie (UMR DIADE - IRD, University of Montpellier, CIRAD - France) |
Description
| CulebrONT is an open-source, scalable, modulable and traceable snakemake pipeline, able to launch multiple assembly tools in parallel and providing help for choosing the best possible assembly. Documentation: https://culebront-pipeline.readthedocs.io/en/2.1.1/ Code development: https://github.com/SouthGreenPlatform/culebrONT
The authors acknowledge the IRD i-Trop HPC (South Green Platform) from IRD Montpellier for providing resources that contributed to this work.
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Sujet
| Informatique et science de l'information |
Mot-clé
| assembly
quality control
long reads
FAIR
reproducibility
snakemake pipeline
python package
genome |
Thématique scientifique
| Informatique (NumeriSud) https://uri.ird.fr/so/kos/tnu/122 |
Publication liée
| Julie Orjuela, Aurore Comte, Sébastien Ravel, Florian Charriat, Tram Vi, François Sabot, Sébastien Cunnac. CulebrONT: a streamlined long reads multi-assembler pipeline for prokaryotic and eukaryotic genomes. https://www.biorxiv.org/content/10.1101/2021.07.19.452922v2 doi: 10.1101/2021.07.19.452922 https://doi.org/10.1101/2021.07.19.452922
Orjuela, Julie; Comte, Aurore; Ravel, Sébastien; Charriat, Florian; Vi, Tram; Sabot, Francois; Cunnac, Sébastien, 2022, "Test data, reports and documentation for CulebrONT software: a streamlined long reads multi-assembler pipeline for prokaryotic and eukaryotic genomes", https://doi.org/10.23708/RJDLCN, DataSuds, V1 doi: 10.23708/rjdlcn https://doi.org/10.23708/rjdlcn |
Langue
| Anglais |
Renseignements sur la subvention
| IRD engineer and research permanent positions DIADE and PHIM research units
CIRAD engineer permanent positions PHIM research unit
IRD engineer contract PHIM research unit
INRAe engineer contract PHIM research unit: MagMAX ANR-18-CE20-0016 grant awarded to Pierre Gladieux.
IRD engineer contract by PHIM funding and the CRP-Rice program |
Déposant
| Orjuela, Julie |
Date de dépôt
| 2022-02-28 |
Type de données
| code data |
Logiciel
| culebrONT, Version: 2.1.1 |
Document connexe
| https://culebront-pipeline.readthedocs.io/en/2.1.1/; https://github.com/SouthGreenPlatform/culebrONT |