Hello, I have a question about the tumor with matched normal. I used the mutect2 to call variant from single tumor and single normal (I had the three tumor samples, so I run three times). After filtering, annotation and merge. And I ran another way that is joint calling of multiple tumor and one normal sample. But I found that some variants in first way (Single tumor and single normal) could not be found in variants from joint calling.
Is joint calling stricter than single pair calling?
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