Can someone please explain in normal language what is meant with the option -q in BWA manual and what criteria one should take into consideration when choosing a value for this parameter?

i.e.:

-q INT 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. [0]

Thanks,

C.

i.e.:

-q INT 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. [0]

Thanks,

C.

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