I found samtools pileup results show '!' in the base quality column. However, I think the lowest one should be #, right? Actually, the base qualities do not match original ones. Does anyone know why?
Base qualities in the input sam file have been changed to Sanger format before samtools pileup.
By the way, should we change the original base quality scores to Sanger quality format before BWA mapping?
Thanks!
Base qualities in the input sam file have been changed to Sanger format before samtools pileup.
By the way, should we change the original base quality scores to Sanger quality format before BWA mapping?
Thanks!
Comment