Skip to Main content Skip to Navigation
Journal articles

instaGRAAL: chromosome-level quality scaffolding of genomes using a proximity ligation-based scaffolder

Abstract : Hi-C exploits contact frequencies between pairs of loci to bridge and order contigs during genome assembly, resulting in chromosome-level assemblies. Because few robust programs are available for this type of data, we developed instaGRAAL, a complete overhaul of the GRAAL program, which has adapted the latter to allow efficient assembly of large genomes. instaGRAAL features a number of improvements over GRAAL, including a modular correction approach that optionally integrates independent data. We validate the program using data for two brown algae, and human, to generate near-complete assemblies with minimal human intervention.
Complete list of metadatas

Cited literature [53 references]  Display  Hide  Download

https://hal-pasteur.archives-ouvertes.fr/pasteur-02873422
Contributor : Romain Koszul <>
Submitted on : Thursday, June 18, 2020 - 11:48:11 AM
Last modification on : Thursday, October 15, 2020 - 5:08:04 PM

File

Baudry_GB_2020.pdf
Publication funded by an institution

Licence


Distributed under a Creative Commons Attribution 4.0 International License

Identifiers

Citation

Lyam Baudry, Nadège Guiglielmoni, Hervé Marie-Nelly, Alexandre Cormier, Martial Marbouty, et al.. instaGRAAL: chromosome-level quality scaffolding of genomes using a proximity ligation-based scaffolder. Genome Biology, BioMed Central, 2020, 21 (1), ⟨10.1186/s13059-020-02041-z⟩. ⟨pasteur-02873422⟩

Share

Metrics

Record views

88

Files downloads

87