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Pair consensus decoding improves accuracy of neural network basecallers for nanopore sequencing.


ABSTRACT: We develop a general computational approach for improving the accuracy of basecalling with Oxford Nanopore's 1D2 and related sequencing protocols. Our software PoreOver ( https://github.com/jordisr/poreover ) finds the consensus of two neural networks by aligning their probability profiles, and is compatible with multiple nanopore basecallers. When applied to the recently-released Bonito basecaller, our method reduces the median sequencing error by more than half.

SUBMITTER: Silvestre-Ryan J 

PROVIDER: S-EPMC7814537 | biostudies-literature | 2021 Jan

REPOSITORIES: biostudies-literature

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Pair consensus decoding improves accuracy of neural network basecallers for nanopore sequencing.

Silvestre-Ryan Jordi J   Holmes Ian I  

Genome biology 20210119 1


We develop a general computational approach for improving the accuracy of basecalling with Oxford Nanopore's 1D<sup>2</sup> and related sequencing protocols. Our software PoreOver ( https://github.com/jordisr/poreover ) finds the consensus of two neural networks by aligning their probability profiles, and is compatible with multiple nanopore basecallers. When applied to the recently-released Bonito basecaller, our method reduces the median sequencing error by more than half. ...[more]

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