DeepRepeat: direct quantification of short tandem repeats on signal data from nanopore sequencing

Abstract Despite recent improvements in basecalling accuracy, nanopore sequencing still has higher error rates on short-tandem repeats (STRs). Instead of using basecalled reads, we developed DeepRepeat which converts ionic current signals into red-green-blue channels, thus transforming the repeat de...

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Библиографические подробности
Главные авторы: Li Fang, Qian Liu, Alex Mas Monteys, Pedro Gonzalez-Alegre, Beverly L. Davidson, Kai Wang
Формат: Artigo
Язык:Inglês
Опубликовано: BMC 2022-04-01
Серии:Genome Biology
Предметы:
Short tandem repeat
Nanopore sequencing
Deep learning
Telomeric repeat
Online-ссылка:https://doi.org/10.1186/s13059-022-02670-6
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