IGV large deletions
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5 months ago

This is my first time using IGV so I am a bit confused. Does the red track indicate the there is a a large deletion within that span?

deletion IGV • 364 views
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13 days ago
wakaruszka ▴ 30

Hello. The red paired reads indicate that their insert size is unexpectedly large after mapping to the reference genome. This can be explained by a deletion in this region. In IGV, you should use the option: View as pairs; Color by insert size; Sort by insert size. This will help you visualize the deletion.

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