Does anyone ever used MMR or others ambiguous reads resolution tools on bam files before to do variant calling? Does it improvement results accuracy?
Thanks for help !
I tried AlignerBoost once https://github.com/Grice-Lab/AlignerBoost
but never really got it established or saw major advantages. However, I do see opportunities for improving short read mapping quality estimates, since incorrect alignments cause many problems in my work.
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