ArticleNature methods2023
Fast and robust metagenomic sequence comparison through sparse chaining with skani.
Article in Nature methods, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 155 papers, 1 of them a synthesis that pooled it.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
155 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Potential routes of plastics biotransformation involving novel plastizymes revealed by global multi-omic analysis of plastic associated microbes.Scientific reports · 2024Pooled it
- metaFun: An analysis pipeline for metagenomic big data with fast and unified functional searches.Gut microbes · 2026Article
- Phylogenomic framework and virulence gene boundaries of emerging Shiga toxin-producingVirulence · 2026Article
- On the hunt for candidate genes involved in host-adaptation in Pseudomonas aeruginosa using comparative genomics.BMC genomics · 2026Article
- Article
- Functional-Taxonomic Scaling Resolves Conflicting Average Genome Size Estimates Across Environmental Gradients.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- The Oxytetracycline ProducerInternational journal of molecular sciences · 2026Article
- Antimicrobial Resistance and Genomic Characteristics of ESBL-ProducingAntibiotics (Basel, Switzerland) · 2026Article
- Adaptive Laboratory Evolution of the Non-Conventional YeastMicroorganisms · 2026Article
- Genome sequences ofMicrobiology resource announcements · 2026Article
- An integrated genomic framework forMicrobial genomics · 2026Article
- Genomic catalogue of giant viruses reveals expanded diversity and functional potential.Nature microbiology · 2026Article
- Mobile genetic elements-driven partitions of mega-plasmids resistome inMicrobiology spectrum · 2026Article
- A qPCR identification scheme to detect the most common causative agents of actinomycetoma in Africa.PLoS neglected tropical diseases · 2026Article
- Chromosome-Scale Genome Analysis Reveals Locus-Specific Disruption of the Citrinin-Associated Region in a Furu-DerivedFoods (Basel, Switzerland) · 2026Article
- A genomic catalog of Earth's bacterial and archaeal symbionts.Nature biotechnology · 2026Article
- The prc gene as a high-resolution proxy for Aeromonas genus-wide clonal genealogy, phylogenomic validation and superiority over traditional MLST.Scientific reports · 2026Article
- Burkholderia arboris bacteremia initially identified as Burkholderia cepacia complex: a genome-based case report.Archives of microbiology · 2026Article
- Draft genome sequence ofMicrobiology resource announcements · 2026Article
- High-quality draft genome sequence ofMicrobiology resource announcements · 2026Article
95 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
2 authors.
Funding
Abstract
Sequence comparison tools for metagenome-assembled genomes (MAGs) struggle with high-volume or low-quality data. We present skani ( https://github.com/bluenote-1577/skani ), a method for determining average nucleotide identity (ANI) via sparse approximate alignments. skani outperforms FastANI in accuracy and speed (>20× faster) for fragmented, incomplete MAGs. skani can query genomes against >65,000 prokaryotic genomes in seconds and 6 GB memory. skani unlocks higher-resolution insights for extensive, noisy metagenomic datasets.
Indexed as
Identifiers
What OpenQuestion holds
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.