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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Autori principali: Li Fang, Qian Liu, Alex Mas Monteys, Pedro Gonzalez-Alegre, Beverly L. Davidson, Kai Wang
Natura: Artigo
Lingua:Inglês
Pubblicazione: BMC 2022-04-01
Serie:Genome Biology
Soggetti:
Short tandem repeat
Nanopore sequencing
Deep learning
Telomeric repeat
Accesso online:https://doi.org/10.1186/s13059-022-02670-6
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