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Old 09-11-2012, 10:09 AM   #1
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Location: India

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Default extract the positions from genome where reads from all the samples have aligned

I have aligned 454 reads from 8 different individuals to the human reference genome using GS reference mapper and converted this alignment into BAMfile now how can I extract the genome positions where the reads from all the 8 individuals have aligned?
I have all ready put marker in read name to identify the individual it belongs to.
Any help will be appreciated
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Old 09-11-2012, 11:45 AM   #2
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Try BEDTools bamToBed
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