In BWA manual, there is a -q option.
Parameter for read trimming. BWA trims a read down to argmax_x{\sum_{i=x+1}^l(INT-q_i)} if q_l<INT where l is the original read length.
I am not really sure what this means. If I say -q 15, what does it really mean?
Parameter for read trimming. BWA trims a read down to argmax_x{\sum_{i=x+1}^l(INT-q_i)} if q_l<INT where l is the original read length.
I am not really sure what this means. If I say -q 15, what does it really mean?
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