ArticleGenome biology2013
REAPR: a universal tool for genome assembly evaluation.
Article in Genome biology, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 234 papers.
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Who cites it
234 citing papers in PubMed.
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- From contiguity to accuracy: Validation-centered perspectives on bacterial genome assembly.Journal of microbiology (Seoul, Korea) · 2026Review
- ChromoMapper: a new tool to quickly compare large genome assemblies.Bioinformatics advances · 2026Article
- Genome misassembly detection using Stash: A data structure based on stochastic tile hashing.PloS one · 2026Article
- Reference genome for the benthic marine diatom Psammoneis japonica: Bacterial associations and repeat-driven genome size evolution in diatoms.Journal of phycology · 2025Article
- Unraveling the Genome Diversity ofLife (Basel, Switzerland) · 2025Review
- Klumpy: A tool to evaluate the integrity of long-read genome assemblies and illusive sequence motifs.Molecular ecology resources · 2025Article
- Current Approaches in Genome Assembly of Human Fungal Pathogens.Methods in molecular biology (Clifton, N.J.) · 2025Article
- Genome Assembly, Polishing, and Analysis of the Chytrid Batrachochytrium salamandrivorans.Methods in molecular biology (Clifton, N.J.) · 2025Article
- Seaside to Bedside: Assembly in Research for Emerging Human Fungal Pathogen Candida auris.Methods in molecular biology (Clifton, N.J.) · 2025Article
- Article
- Telomere-to-telomere Schizosaccharomyces japonicus genome assembly reveals hitherto unknown genome features.Yeast (Chichester, England) · 2024Article
- Whole-genome sequencing in medicinal plants: current progress and prospect.Science China. Life sciences · 2024Review
- Topological structures and syntenic conservation in sea anemone genomes.Nature communications · 2023Article
- Identification of errors in draft genome assemblies at single-nucleotide resolution for quality assessment and improvement.Nature communications · 2023Article
- Mapping of a major QTL for increased robustness and detection of genome assembly errors in Asian seabass (Lates calcarifer).BMC genomics · 2023Article
- WebQUAST: online evaluation of genome assemblies.Nucleic acids research · 2023Article
- Theoretical Analysis of Sequencing Bioinformatics Algorithms and Beyond.Communications of the ACM · 2023Article
- RegCloser: a robust regression approach to closing genome gaps.BMC bioinformatics · 2023Article
174 more citing papers are in PubMed but not listed here.
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Authors and funding
6 authors.
Funding
Abstract
Methods to reliably assess the accuracy of genome sequence data are lacking. Currently completeness is only described qualitatively and mis-assemblies are overlooked. Here we present REAPR, a tool that precisely identifies errors in genome assemblies without the need for a reference sequence. We have validated REAPR on complete genomes or de novo assemblies from bacteria, malaria and Caenorhabditis elegans, and demonstrate that 86% and 82% of the human and mouse reference genomes are error-free, respectively. When applied to an ongoing genome project, REAPR provides corrected assembly statistics allowing the quantitative comparison of multiple assemblies. REAPR is available at http://www.sanger.ac.uk/resources/software/reapr/.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.