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4.5 years ago
Adeler001
•
0
We want to get more information on a variant of interest. We believe we can get more information from recovering unmapped reads . The current whole genome we are looking at is mapped to hg19 reference genome . how can we recover the unmapped reads?
How to extract unmapped Paired end reads from BWA output sam file
Samtools Unmapped Reads
To extract unmapped pair end reads
By using methods @ATPoint linked above. Assuming your BAM file contains unmapped reads in first place.