Finding Reads That Overlap Variant From Sam File
I have a variant and I would like to find all of the reads in my SAM that overlap it. There has to be a simple way to do this but google is not providing it to me, darn you google.
Thanks for your help
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huskerjeff492 •
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duplicate of SAM/BAM: Extract only alignment reads that contain a specific position
Hello huskerjeff492!
Questions similar to yours can already be found at:
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If you disagree with this please tell us why in a reply below. We'll be happy to talk about it.
Cheers!
PS: Closed to stop the Biostars bot from bumping the thread again. Thank you for the 5-year old heads-up, @Pierre :-)