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Old 02-04-2020, 10:21 PM   #2
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Location: US

Join Date: Dec 2010
Posts: 438

To me the data you mentioned are no big reason to worry. They gave you more data for the first sample, but duplicates are certianly higher than expected.
The biases visible for the first 16 nt in the second plot indicate that they use Nextera or other transposase library preps - I do not like this chemistry because it introduces more biases than necessary.
The slightly varying read lengths is very curious - I have no clue how these could have been generated.
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