Method

Fast and accurate mapping of long reads to complete genome assemblies with VerityMap

    • 1Graduate Program in Bioinformatics and Systems Biology, University of California, San Diego, California 92093, USA;
    • 2Center for Algorithmic Biotechnology, Saint Petersburg State University, Saint Petersburg, 199034, Russia;
    • 3Department of Computer Science and Engineering, University of California, San Diego, California 92093, USA
    • 4 These authors contributed equally to this work.
Published November 15, 2022. Vol 32 Issue 11-12, pp. 2107-2118. https://doi.org/10.1101/gr.276871.122
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cover of Genome Research Vol 36 Issue 4
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April 2026, Vol. 36, No. 4
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Abstract

Recent advancements in long-read sequencing have enabled the telomere-to-telomere (complete) assembly of a human genome and are now contributing to the haplotype-resolved complete assemblies of multiple human genomes. Because the accuracy of read mapping tools deteriorates in highly repetitive regions, there is a need to develop accurate, error-exposing (detecting potential assembly errors), and diploid-aware (distinguishing different haplotypes) tools for read mapping in complete assemblies. We describe the first accurate, error-exposing, and partially diploid-aware VerityMap tool for long-read mapping to complete assemblies.

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