ArticleGenome biology2020
instaGRAAL: chromosome-level quality scaffolding of genomes using a proximity ligation-based scaffolder.
Article in Genome biology, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.
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Who cites it
27 citing papers in PubMed.
- Transcriptional profiles of the fish parasite Neoechinorhynchus agilis (Acanthocephala) emphasize energetic stress in males and high cell-division activity in females.BMC genomics · 2025Article
- Myxozoan parasite genomes assembled from contaminated host data reveal extensive gene order conservation and rapid sequence evolution.G3 (Bethesda, Md.) · 2025Article
- Genomic comparison of the temperate coral Astrangia poculata with tropical corals yields insights into winter quiescence, innate immunity, and sexual reproduction.G3 (Bethesda, Md.) · 2025Article
- Chromosome-scale genome dynamics reveal signatures of independent haplotype evolution in the ancient asexual miteScience advances · 2025Article
- Genome assembly of the southern pine beetle (Royal Society open science · 2024Article
- A deep learning-based method enables the automatic and accurate assembly of chromosome-level genomes.Nucleic acids research · 2024Article
- The Bioinformatic Applications of Hi-C and Linked Reads.Genomics, proteomics & bioinformatics · 2024Review
- Chromosome-level genome assembly of the bay scallop Argopecten irradians.Scientific data · 2024Article
- Article
- Genome assembly of the southern pine beetle (bioRxiv : the preprint server for biology · 2024Article
- Chromosome-level genome assembly of the European green woodpecker Picus viridis.G3 (Bethesda, Md.) · 2024Article
- The brown seaweed Ectocarpus.Nature methods · 2024Article
- Orchestrating chromosome conformation capture analysis with Bioconductor.Nature communications · 2024Article
- Range-wide differential adaptation and genomic offset in critically endangered Asian rosewoods.Proceedings of the National Academy of Sciences of the United States of America · 2023Article
- The genome of the reef-building glass spongeRoyal Society open science · 2023Article
- A chromosome-level genome assembly reveals genomic characteristics of the American mink (Neogale vison).Communications biology · 2022Article
- Chromosomal assembly of the flat oyster (Evolutionary applications · 2022Article
- Pulmonate slug evolution is reflected in the de novo genome of Arion vulgaris Moquin-Tandon, 1855.Scientific reports · 2022Article
- Chromatin landscape associated with sexual differentiation in a UV sex determination system.Nucleic acids research · 2022Article
- Comparative analysis of the Mercenaria mercenaria genome provides insights into the diversity of transposable elements and immune molecules in bivalve mollusks.BMC genomics · 2022Article
Corrections and comments
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Authors and funding
13 authors.
Funding
No grant is acknowledged in the PubMed record.
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.
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