How to make paired-end sequencing multi-mapping reads have only the optimal two reads

Question

[minghuiguo448]

l'm a starter,and I want to use a python script， but it can only identify matching reads,so how to filter out the multi-map read so that only the optimal unique mapping is retained？

thank you for your reply.

[desouzareis.r]

Hi,

Are you thinking about Generating consensus sequence from bam file?

[minghuiguo448]

Thanks for your answer.

But I don’t mean it, I mean how to keep only the optimal solution in the multi-map read？