IGV large deletions
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?
• 1,504 views
•
link
updated
by
wakaruszka •
•
written
by
Mohammad Amin •
•
written
by
Mohammad Amin •
1 answer
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.
• 0 views
•
link
written
by
wakaruszka •
Log in to answer this question.
More posts like this
-
Interpret IGV
written by najim3 •
-
Why higher read counts in chromosome M/MT
written by Lou11 •
-
ChIP-seq; investigate binding within region of tRNA genes
written by 2138493o •
-
IGV clarification on my interpretation
written by Roy •
-
IGV deletion insert size
written by robinycfang •
-
Whats the Difference between variants and SNPs in IGV?(or in general)
written by tmrhyd •
-
Visualization software for large variations
written by rse
-
(Closed) IGV Visualization Insert Size
written by rse
-
IGV color interpretation by insert size
written by komal.rathi
-
exporting raw data from CNV Summary track in Broad IGV
written by sic •
