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Old 03-28-2014, 05:26 AM   #3
blakeoft
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Location: Connecticut

Join Date: Oct 2013
Posts: 79
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Thank you for your reply. I have another question. What does a red variant mean on IGV? I read through the online document about VCF files here http://www.broadinstitute.org/igv/viewing_vcf_files, but it only mentions what dark blue, cyan and grey mean. Also, what does it mean if a variant has multiple colors? In my picture, I have two calls with dark blue over red.

Here is an example.

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