ArticleF1000Research2021
Large-scale quality assessment of prokaryotic genomes with metashot/prok-quality.
Article in F1000Research, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
9 citing papers in PubMed.
- Two-hourly resolved microbial and viral dynamics in the subtropical Daya Bay.Scientific data · 2026Article
- Reconstruction of 2,965 Microbial Genomes from Mangrove Sediments across Guangxi, China.Scientific data · 2025Article
- Genome-resolved metagenomics and evolutionary analysis reveal conserved metabolic adaptations in extremophile communities from a copper mining tailing.Environmental microbiome · 2025Article
- Draft genome sequence of an uncultured archaeon from Antarctic endolithic communities.Microbiology resource announcements · 2025Article
- Multi-omic stock of surface ocean microbiome built by monthly, weekly and daily sampling in Dapeng Bay, China.Scientific data · 2025Article
- Navigating the Complex Terrain of Methane Synthesis: Multienzyme Control Points and Data-Driven Strategies.ACS omega · 2025Article
- Review
- Size-fractionated microbiome observed during an eight-month long sampling in Jiaozhou Bay and the Yellow Sea.Scientific data · 2022Article
- Genome sequencing provides new insights on the distribution of Erwinia amylovora lineages in northern Italy.Environmental microbiology reports · 2022Article
Corrections and comments
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Authors and funding
2 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Metagenomic sequencing allows large-scale identification and genomic characterization. Binning is the process of recovering genomes from complex mixtures of sequence fragments (metagenome contigs) of unknown bacteria and archaeal species. Assessing the quality of genomes recovered from metagenomes requires the use of complex pipelines involving many independent steps, often difficult to reproduce and maintain. A comprehensive, automated and easy-to-use computational workflow for the quality assessment of draft prokaryotic genomes, based on container technology, would greatly improve reproducibility and reusability of published results. We present metashot/prok-quality, a container-enabled Nextflow pipeline for quality assessment and genome dereplication. The metashot/prok-quality tool produces genome quality reports that are compliant with the Minimum Information about a Metagenome-Assembled Genome (MIMAG) standard, and can run out-of-the-box on any platform that supports Nextflow, Docker or Singularity, including computing clusters or batch infrastructures in the cloud. metashot/prok-quality is part of the metashot collection of analysis pipelines. Workflow and documentation are available under GPL3 licence on GitHub.
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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.