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a problem with SR reads #397

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fjptwenger opened this issue Dec 31, 2024 · 0 comments
Open

a problem with SR reads #397

fjptwenger opened this issue Dec 31, 2024 · 0 comments

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@fjptwenger
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I found that there are no SR reads in the result file, but I can see the SR reads on the IGV plot, and I want to confirm what kind read will be assigned as SR?

out result:
image

but region in IGV:
image

see the "IGV-SR" read cigars in bam file, we can find : the sum of the red position (figure below) == breakpoint position :

image

Whether the read does not cover the breakpoint is not determined as an SR?or other reasons?

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