align without trimming for quality and/or adaptor

brentp / bwa-meth

fast and accurate alignment of BS-Seq reads using bwa-mem and a 3-letter genome

https://arxiv.org/abs/1401.1129

MIT License

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align without trimming for quality and/or adaptor #62

Closed crazyhottommy closed 5 years ago

crazyhottommy commented 5 years ago

Hi Bent, It says bwa-meth works well without trimming. I see in the paper it is trimming for low-quality reads. I should trim off the adaptors though?

Thanks, Ming

brentp commented 5 years ago

yeah. I would probably trim the adaptors.

crazyhottommy commented 5 years ago

thanks Brent!