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05-31-2015, 01:48 AM
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Junior Member
Location: Beijing,China Join Date: May 2013
Posts: 6
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Trim to target in exome-seq
Dear all,
I am now analyzing some downloaded WES data to find SNPs and there certainly could have reads map to introns. My questions are: Should I remove these reads map to intons or just keep them? What difference does it make? I plan to use USCS RefSeq Gene as annotation of exon boundaries, are there any notable difference between this annotation and exon array used to purify exome during experiment? Thanks! 
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