ArticleGenome biology2022
metaMIC: reference-free misassembly identification and correction of de novo metagenomic assemblies.
Article in Genome biology, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers.
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Who cites it
22 citing papers in PubMed.
- Trial
- Structural variant detection across sequencing technologies.Nature biotechnology · 2026Article
- Decoding extremophiles: insights from bioinformatics, machine learning, and data-driven approaches.Briefings in bioinformatics · 2026Review
- Troubleshooting common errors in assemblies of long-read metagenomes.Nature biotechnology · 2026Article
- Bin Chicken: targeted metagenomic coassembly for the efficient recovery of novel genomes.Nature methods · 2025Article
- Prediction of soil probiotics based on foundation model representation enhancement and stacked aggregation classifier.Briefings in bioinformatics · 2025Article
- Genome-resolved metagenomics from short-read sequencing data in the era of artificial intelligence.Functional & integrative genomics · 2025Review
- Klumpy: A tool to evaluate the integrity of long-read genome assemblies and illusive sequence motifs.Molecular ecology resources · 2025Article
- Profiling lateral gene transfer events in the human microbiome using WAAFLE.Nature microbiology · 2025Article
- ARGContextProfiler: extracting and scoring the genomic contexts of antibiotic resistance genes using assembly graphs.Frontiers in microbiology · 2025Article
- Long-read metagenomics gives a more accurate insight into the microbiota of long-ripened gouda cheeses.Frontiers in microbiology · 2025Article
- Complementary insights into gut viral genomes: a comparative benchmark of short- and long-read metagenomes using diverse assemblers and binners.Microbiome · 2024Article
- An interlaboratory proficiency test using metagenomic sequencing as a diagnostic tool for the detection of RNA viruses in swine fecal material.Microbiology spectrum · 2024Article
- Integrated analysis of facial microbiome and skin physio-optical properties unveils cutotype-dependent aging effects.Microbiome · 2024Article
- Phylogeny and disease associations of a widespread and ancient intestinal bacteriophage lineage.Nature communications · 2024Article
- Efficient Recovery of Complete Gut Viral Genomes by Combined Short- and Long-Read Sequencing.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2024Article
- Correlation between the gut microbiome and neurodegenerative diseases: a review of metagenomics evidence.Neural regeneration research · 2024Review
- ResMiCo: Increasing the quality of metagenome-assembled genomes with deep learning.PLoS computational biology · 2023Article
- Metaphor-A workflow for streamlined assembly and binning of metagenomes.GigaScience · 2022Article
- metaMIC: reference-free misassembly identification and correction of de novo metagenomic assemblies.Genome biology · 2022Article
Corrections and comments
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Authors and funding
6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Evaluating the quality of metagenomic assemblies is important for constructing reliable metagenome-assembled genomes and downstream analyses. Here, we present metaMIC ( https://github.com/ZhaoXM-Lab/metaMIC ), a machine learning-based tool for identifying and correcting misassemblies in metagenomic assemblies. Benchmarking results on both simulated and real datasets demonstrate that metaMIC outperforms existing tools when identifying misassembled contigs. Furthermore, metaMIC is able to localize the misassembly breakpoints, and the correction of misassemblies by splitting at misassembly breakpoints can improve downstream scaffolding and binning results.
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Registered trials
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.