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Part 1: Document Description
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Citation |
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Title: |
Source code of CulebrONT: a streamlined long reads multi-assembler pipeline for prokaryotic and eukaryotic genomes |
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Identification Number: |
doi:10.23708/TBPNWJ |
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Distributor: |
DataSuds |
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Date of Distribution: |
2022-03-08 |
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Version: |
3 |
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Bibliographic Citation: |
Orjuela, Julie; Comte, Aurore; Ravel, Sébastien; Charriat, Florian; Vi, Tram; Sabot, François; Cunnac, Sébastien, 2022, "Source code of CulebrONT: a streamlined long reads multi-assembler pipeline for prokaryotic and eukaryotic genomes", https://doi.org/10.23708/TBPNWJ, DataSuds, V3 |
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Citation |
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Title: |
Source code of CulebrONT: a streamlined long reads multi-assembler pipeline for prokaryotic and eukaryotic genomes |
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Identification Number: |
doi:10.23708/TBPNWJ |
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Identification Number: |
South Green platform <a>https://southgreenplatform.github.io/trainings/contact/</a> |
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Identification Number: |
IFB - French Institut of Bioinformatics |
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Authoring Entity: |
Orjuela, Julie (UMR DIADE - IRD, University of Montpellier, CIRAD - France) |
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Comte, Aurore (UMR PHIM - IRD, University of Montpellier, CIRAD, INRAe, Agro Institut - France) |
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Ravel, Sébastien (UMR PHIM - CIRAD, University of Montpellier, IRD, INRAe, Agro Institut - France) |
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Charriat, Florian (UMR PHIM - INRAe, University of Montpellier, IRD, CIRAD, Agro Institut - France) |
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Vi, Tram (UMR DIADE - IRD, University of Montpellier, CIRAD - France) |
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Sabot, François (UMR DIADE - IRD, University of Montpellier, CIRAD - France) |
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Cunnac, Sébastien (UMR PHIM - IRD, University of Montpellier, CIRAD, INRAe, Agro Institut - France) |
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Software used in Production: |
culebrONT |
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Grant Number: |
MagMAX ANR-18-CE20-0016 grant awarded to Pierre Gladieux. |
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Grant Number: |
MagMAX ANR-18-CE20-0016 grant awarded to Pierre Gladieux. |
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Distributor: |
DataSuds |
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Access Authority: |
Orjuela, Julie |
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Depositor: |
Orjuela, Julie |
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Date of Deposit: |
2022-02-28 |
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Holdings Information: |
https://doi.org/10.23708/TBPNWJ |
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Study Scope |
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Keywords: |
Computer and Information Science, assembly, quality control, long reads, FAIR, reproducibility, snakemake pipeline, python package, genome |
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Topic Classification: |
Computer sciences |
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Abstract: |
<b>CulebrONT</b> 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. <br>Documentation: <a href="https://culebront-pipeline.readthedocs.io/en/2.1.1/">https://culebront-pipeline.readthedocs.io/en/2.1.1/</a> <br>Code development: <a href="https://github.com/SouthGreenPlatform/culebrONT">https://github.com/SouthGreenPlatform/culebrONT</a> <br><br> <a href="https://southgreenplatform.github.io/trainings/contact/"><img src="https://southgreenplatform.github.io/tutorials/images/southgreenlong.png" width=250></a> The authors acknowledge the IRD i-Trop HPC (South Green Platform) from IRD Montpellier for providing resources that contributed to this work. <br> |
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Kind of Data: |
code data |
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Methodology and Processing |
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Sources Statement |
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Data Access |
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Other Study Description Materials |
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Related Materials |
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<a href="https://culebront-pipeline.readthedocs.io/en/2.1.1/">https://culebront-pipeline.readthedocs.io/en/2.1.1/</a> |
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<a href="https://github.com/SouthGreenPlatform/culebrONT">https://github.com/SouthGreenPlatform/culebrONT</a> |
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Related Publications |
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Citation |
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Title: |
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 |
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Identification Number: |
10.1101/2021.07.19.452922 |
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Bibliographic Citation: |
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 |
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Citation |
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Title: |
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 |
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Identification Number: |
10.23708/rjdlcn |
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Bibliographic Citation: |
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 |
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Label: |
culebrONT-2.1.1.tar.gz |
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Text: |
Source code of culebrONT pipeline stable version 2.1.1 |
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Notes: |
application/gzip |