Question

what is IGV visualization lighter color variants stand for

1

Entering edit mode

10 weeks ago

octpus616 ▴ 60

Hi

I am recently trying to use IGV to visualize variations in vcf file, I noted some variants mark as a lighter color, what is this stand for?

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Zhang

visualization vcf IGV • 223 views

ADD COMMENT • link updated 10 weeks ago by Jorge Amigo 14k • written 10 weeks ago by octpus616 ▴ 60

score 5 · Accepted Answer · 2023-03-28

5

Entering edit mode

10 weeks ago

Jorge Amigo 14k

Lighter variants are usually those with non-PASS filter

ADD COMMENT • link 10 weeks ago by Jorge Amigo 14k