Best way to deal with chimeric reads?
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8 months ago

Hi everyone! I have some DNA data (custom panel on human gene) that have a lot of chimeras reads, due to the library preparation procotol. I have aligned the data with BWA and then call variants with GATK HC, but I was wondering if there is a better way to align the chimeric reads and call variants on them. Thanks

sequencing alignment Illumina Short-reads chimera • 287 views
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