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Article

KAGE: fast alignment-free graph-based genotyping of SNPs and short indels.

Genome biology - 4 Oct 2022

Grytten Ivar, Dagestad Rand Knut, Sandve Geir Kjetil

Abstract excerpt

Genotyping is a core application of high-throughput sequencing. We present KAGE, a genotyper for SNPs and short indels that is inspired by recent developments within graph-based genome representations and alignment-free methods. KAGE uses a pan-genome representation of the population to efficiently and accurately predict genotypes. Two novel ideas improve both the speed and accuracy: a Bayesian model incorporates...

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Methodology Data sources Editorial policy Privacy About Contact Helena Bioinformatics

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Source

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Identifiers

PMID: 36195962
DOI: 10.1186/s13059-022-02771-2
PMCID: PMC9531401

Provenance

PubMed metadata and Literature Corpus relationships. Corpus snapshot updated 7 Sept 2026. Manifest publication-graph-cohort-2026-09-07.1.

Source receipt: pubmed, retrieved 7 Sept 2026.

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