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Old 04-11-2017, 04:37 AM   #106
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Location: London, UK

Join Date: Apr 2017
Posts: 1

Originally Posted by peerah View Post
Hi Brian! I have a question: I am working on a fungal ITS metagenomic amplicon library with a pretty wide variation in sizes (200-500 bp). We are doing 2x300, and my second reads are a little bit lower in quality compared to the firsts. Is there any setting on the BBMerge that I should modify in order to get the most out of the data? I'm pretty new to the field, so please let me know if you need more information! Thank you.
Hi Peerah,

We are having the same problem in our lab with 2x300 miseq runs- very poor Read 2 >Q30 scores- and I was wondering if Brian`s recommendation improved the number of paired-sequences you obtained from that run.

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