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April 9, 2026BioinformaticsOpen Access

Accelerated long-read variant calling with Clair3 for whole-genome sequencing

Zhenxian Zheng Minggao He Xian Yu Junzhe Li Li‐Qun Chen Angel On Ki Wong Jingcheng Zhang Yekai Zhou Ruibang Luo

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Key Points

The central aim is to enhance the accuracy and speed of variant calling in whole-genome sequencing using Clair3.
Utilized Clair3 for variant calling on long-read sequences from whole-genome samples.
Compared variant calling performance with existing methods.
Analyzed computational time and accuracy metrics.
Clair3 significantly improved variant calling accuracy over traditional methods.
Reduced computational time for processing whole-genome sequences.
Achieved higher sensitivity and specificity in identifying variants.

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Implication

Demonstrates improved variant calling accuracy in whole-genome sequencing using Clair3, highlighting its potential benefits for genomic analysis.

Abstract

Supplementary data are available at Bioinformatics online.

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Cite This Study

Zheng et al. (2026) studied this question.

synapsesocial.com/papers/69df2c50e4eeef8a2a6b158e https://doi.org/10.1093/bioinformatics/btag181

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Keep reading

Synapse has enriched 5 closely related papers on similar clinical questions. Consider them for comparative context:

1ClairS: a deep-learning method for long-read tumor–normal pair somatic small variant callingOriginal Research · 2026 · 5 citations
2GenMPI: Cluster Scalable Variant Calling for Short/Long Reads Sequencing Data2025 · 1 citations
3CD-HIT: accelerated for clustering the next-generation sequencing dataOriginal Research · 2012 · 11,155 citations
4Toward better understanding of artifacts in variant calling from high-coverage samplesOriginal Research · 2014 · 895 citations
5ChoCallate: a computational pipeline for consensus germline variant calling in genomic sequencing dataOriginal Research · 2026

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