ReviewJournal of computational biology : a journal of computational molecular cell biology2023
Creating and Using Minimizer Sketches in Computational Genomics.
Review in Journal of computational biology : a journal of computational molecular cell biology, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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Who cites it
16 citing papers in PubMed.
- Seqwin: ultrafast identification of signature sequences in microbial genomes.Bioinformatics (Oxford, England) · 2026Article
- Hash functions in nucleotide sequence analysis.Genome research · 2026Review
- Density-reducing Jaccard estimators for sketch-based long read applications.BMC bioinformatics · 2025Article
- Seqwin: Ultrafast identification of signature sequences in microbial genomes.bioRxiv : the preprint server for biology · 2025Article
- GreedyMini: generating low-density DNA minimizers.Bioinformatics (Oxford, England) · 2025Article
- Fast and flexible minimizer digestion with digest.Bioinformatics (Oxford, England) · 2025Article
- The open-closed mod-minimizer algorithm.Algorithms for molecular biology : AMB · 2025Article
- Fast and Scalable Parallel External-Memory Construction of Colored Compacted de Bruijn Graphs with Cuttlefish 3.bioRxiv : the preprint server for biology · 2025Article
- Construction of edit-distance graphs for large sets of short reads through minimizer-bucketing.Bioinformatics advances · 2025Article
- A near-tight lower bound on the density of forward sampling schemes.Bioinformatics (Oxford, England) · 2024Article
- A near-tight lower bound on the density of forward sampling schemes.bioRxiv : the preprint server for biology · 2024Article
- k-nonical space: sketching with reverse complements.Bioinformatics (Oxford, England) · 2024Article
- When less is more: sketching with minimizers in genomics.Genome biology · 2024Review
- Memory-boundGenome research · 2024Article
- Sketching Methods with Small Window Guarantee Using Minimum Decycling Sets.Journal of computational biology : a journal of computational molecular cell biology · 2024Article
- Article
Corrections and comments
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Authors and funding
3 authors.
Funding
Abstract
Processing large data sets has become an essential part of computational genomics. Greatly increased availability of sequence data from multiple sources has fueled breakthroughs in genomics and related fields but has led to computational challenges processing large sequencing experiments. The minimizer sketch is a popular method for sequence sketching that underlies core steps in computational genomics such as read mapping, sequence assembling, k-mer counting, and more. In most applications, minimizer sketches are constructed using one of few classical approaches. More recently, efforts have been put into building minimizer sketches with desirable properties compared with the classical constructions. In this survey, we review the history of the minimizer sketch, the theories developed around the concept, and the plethora of applications taking advantage of such sketches. We aim to provide the readers a comprehensive picture of the research landscape involving minimizer sketches, in anticipation of better fusion of theory and application in the future.
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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.