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I am planning to run BAFExtract on my STAR-aligned BAM file, but I am not sure what to specify as the minimum mapping quality threshold. Should I specify 255 so that it only uses uniquely mapped reads?
I am planning to run BAFExtract on my STAR-aligned BAM file, but I am not sure what to specify as the minimum mapping quality threshold. Should I specify 255 so that it only uses uniquely mapped reads?