Hello everyone,
I just want to know how important is mapping quality value when we align the next generation sequencing data with any of the software like bowtie, bwa or bfast. I mean if reads have mapping quality value of 60 or say 50 should be discard them or take them. How should be decide that up-to what mapping quality we will take the reads.
As far as I know mapping quality indicates the confidence that a read mapped to a particular position in the genome is correct.
Please give your inputs.
Thanks,
Neha
I just want to know how important is mapping quality value when we align the next generation sequencing data with any of the software like bowtie, bwa or bfast. I mean if reads have mapping quality value of 60 or say 50 should be discard them or take them. How should be decide that up-to what mapping quality we will take the reads.
As far as I know mapping quality indicates the confidence that a read mapped to a particular position in the genome is correct.
Please give your inputs.
Thanks,
Neha
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