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Old 02-09-2013, 12:26 AM   #7
dariober
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Location: Cambridge, UK

Join Date: May 2010
Posts: 311
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Quote:
Originally Posted by fabrice View Post
Thank you for your suggestions.
I am doing RNA-seq data analysis. I am still not very sure it is neccessary to remove the duplication or not.
I think in RNAseq is normal to see reads piling up at the same position (i.e. duplicates), especially in highly expressed genes and/or with high sequencing depth. So I don't think it is recommendable to remove duplicates. But see also this thread for longer discussion http://seqanswers.com/forums/showthread.php?t=6854.
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