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Old 01-17-2020, 07:48 PM   #1
chilipep
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Location: NYC

Join Date: Oct 2019
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Default MiSeq Nano 1M reads for whole-gen diversity check

I recently submitted the GecKO library (~120K guides) for a MiSeq Nano run to check diversity (and mostly to check my custom seq primer etc. was working). It performed 1.3M reads, so about 10x the library size. I realize this is not nearly enough, since it's recommended to do 100x the library size. Even with 1/10th of the recommended depth, I had about 2.5% unread guides (rec is <0.5%). Do you think I can go ahead with this library? I really don't want to spend more money to do a 12M+ run. Thoughts?
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