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malonge / RagTag

Tools for fast and flexible genome assembly scaffolding and improvement
MIT License
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repeat masking #150

Closed evo-eco-gen closed 1 year ago

evo-eco-gen commented 1 year ago

Hi, Would you recommend repeat masking the genomes before alignment? On the minimap2 repository Heng Li recommends using unmasked, but I am not sure if that's the consensus.

malonge commented 1 year ago

I do not recommend repeat masking.