Do you need to perform genome masking prior to CRAQ?

JiaoLaboratory / CRAQ

Identification of errors in draft genome assemblies with single-base pair resolution for quality assessment and improvement

https://doi.org/10.1038/s41467-023-42336-w

MIT License

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Do you need to perform genome masking prior to CRAQ? #15

Closed Isoris closed 5 months ago

Isoris commented 5 months ago

Hi, thanks for the tool,

Do you recommend to mask repetitive elements before running CRAQ or not?

Thank you for the answer, Quen

JiaoLaboratory commented 5 months ago

Masking repete unnecessary and unreasonable. Masking turns repeat sequences into N, which forces some sequences to align to other regions, leading to false positives

Isoris commented 5 months ago

Ok thanks!