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09-13-2013, 05:56 AM
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#1 |
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Junior Member
Location: switzerland Join Date: Aug 2011
Posts: 5
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bwa-mem artifact with deletions
Hi
when I run bwa-mem with the options "-w 100 -O 5 -E 0.4" on paired end data I get the distribution of deletion sizes as shown in the attached image. Can anybody give a hint where this spiky pattern comes from? It is not observed when aligning with bwa-aln or bowtie2, so it does not seem to be due to the sample. Any hint would be welcome. best regards hubert |
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