BWA-MEM rather than bowtie2 in UKBB exome-sequencing alignment
Hi All,
Who knows why UKBB applied BWA-MEM rather than bowtie2 for the first 50,000 UKBB exome-sequencing alignment?
Thanks.
exome-sequencing
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Were they considering Bowtie2?
I don't know how UKBB chose their pipeline, but most exome sequencing projects (for example, TCGA or gnomAD) use BWA, so it's not a surprising choice.