@article{fdi:010089128,
  title = {{C}ulebr{ONT} : a streamlined long reads multi-assembler pipeline for prokaryotic and eukaryotic genomes},
  author = {{O}rjuela, {J}. and {C}omte, {A}urore and {R}avel, {S}. and {C}harriat, {F}. and {V}i, {T}. and {S}abot, {F}ran{\c{c}}ois and {C}unnac, {S}{\'e}bastien},
  editor = {},
  language = {{ENG}},
  abstract = {{U}sing long reads provides higher contiguity and better genome assemblies. {H}owever, 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. {T}o tackle this challenge, we developed {C}ulebr{ONT}, 



an open-source, scalable, modular and traceable {S}nakemake pipeline for assembling long reads data. {C}ulebr{ONT} enables to perform tests on multiple samples and multiple long reads assemblers in parallel, and can optionally perform, downstream circularization and polishing. 



{I}t further provides a range of assembly quality metrics summarized in a final user-friendly report. {C}ulebr{ONT} alleviates the difficulties of assembly pipelines development, and allow users to identify the best assembly options.},
  keywords = {},
  booktitle = {},
  journal = {{P}eer {C}ommunity {J}ournal},
  volume = {2},
  numero = {},
  pages = {e46 [9 ]},
  ISSN = {2804-3871},
  year = {2022},
  DOI = {10.24072/pcjournal.153},
  URL = {https://www.documentation.ird.fr/hor/fdi:010089128},
}