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Old 06-17-2014, 10:19 AM   #11
manuelkleiner
Junior Member
 
Location: Calgary

Join Date: Jun 2014
Posts: 5
Default Cut off the first 10 bp of each read with BBDuk

Dear Brian,
Thank you for BBDuk. Great tool!
I have been using it so far for quality and adapter trimming, but there is one additional trimming step that I would like to do with it and I am not sure if and how it is possible with BBDuk.
The first 10 bases of my reads are usually of high quality, but I observe that their GCAT-content is not as even as it should be. So I would like to cut the first 10 bases of all reads during the quality and adapter trimming. Is that possible with BBDuk?
I have been doing this with nesoni clip so far, but it would be great if I could do all the trimming in BBDuk in one or two steps.
Thank you,
Manuel Kleiner
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