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Hi! As I am doing this, I am wondering if the *.aligned.sortedbycoordinate.bam had any other sort of filtering like mapping quality, duplicates, etc? and should i go back and refilter that? |
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Hi Marliette, The BAM file is filtered in the standard way, i.e. with --outFilter* options. |
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Hi Marliette,
The BAM file is filtered in the standard way, i.e. with --outFilter* options.