Article

Genestrip: Space-efficient k-mer counting, read classification and filtering for selected groups of organisms

2026-05-19

Abstract excerpt

<title>Abstract</title> <p>Background: The consumption of main memory resources is a significant burden in k-mer-based metagenomic analysis when creating related databases but also when performing (unique) k-mer-counting and read classification. Genestrip addresses this issue by focusing on small but freely configurable groups of organisms. Regarding the selected organisms, Genestrip produces k-mer databases and...

Topics

Open a Topic to create a Post that cites this publication.

Identifiers and source

Literature Corpus work: d67bd613-759e-5a55-ad21-30eaaa14122e
DOI: 10.21203/rs.3.rs-7373421/v1

Open publication

Related research

Semantic proximity does not establish scientific evidence.

Click a neighbor to travelStep 1 · 12 closest

Genestrip: Space-efficient k-mer counting, read classification and filtering for selected groups of organismsDOI 10.21203/rs.3.rs-7373421/v1Read

Efficient exact associative structure for sequencing dataSemantic proximity Read

GREAC: An Open-source software for Genome Region Extraction and ClassificationSemantic proximity Read

A Computational Toolset for Rapid Identification of SARS-CoV-2, other Viruses, and Microorganisms from Sequencing DataSemantic proximity Read

Afanc: a Metagenomics Tool for Variant Level Disambiguation of NGS DatasetsSemantic proximity Read

aaKomp: Alignment-free amino acid <i>k</i> -mer matching for genome completeness assessment at scaleSemantic proximity Read

Merqury: reference-free quality, completeness, and phasing assessment for genome assembliesSemantic proximity Read

StrainSeeker: fast identification of bacterial strains from unassembled sequencing reads using user-provided guide treesSemantic proximity Read

MetaEuk – sensitive, high-throughput gene discovery and annotation for large-scale eukaryotic metagenomicsSemantic proximity Read

DNA.Land is a framework to collect genomes and phenomes in the era of abundant genetic information.Semantic proximity Read

taxaTarget: Fast, sensitive, and precise classification of microeukaryotes in metagenomic dataSemantic proximity Read

Afanc: a Metagenomics Tool for Variant Level Disambiguation of NGS DatasetsSemantic proximity Read

Optimized <i>k</i> -mer search across millions of bacterial genomes on laptopsSemantic proximity Read