How to treat with high mismatch reads in whole genome studies?
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6.0 years ago
Whoknows ▴ 880

Hi all friends

I have whole genome project, during this alignment with human genome I faced with a big challenge, how to treat with un-mapped reads which have high mismatches for example 20-30 mismatches in a read. Because, usually aligners discard them and save them in an un-mapped reads file.

But my questions is, Is there any way to do more work on them or I have to ignore them?

Many thanks

 

 

 

 

SNP alignment sequencing mismatch • 1.2k views
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