Question: How to find overlaps in genomic sequences comparing patients to themselves
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gravatar for sbailey5
3 months ago by
sbailey50
sbailey50 wrote:

Hello all,

I am currently trying to use genomicranges (or any other package) in order to find overlapping regions on chromosomes when matching patients to themselves. In other words, I am trying to find a working way to tell R to delete the patients who have overlapping start end numbers BUT only comparing the patients to themselves.

I need a code in order to do this by matching the patients only to themselves and not to other patient ID's.

If anyone has any advice please post! And thank you to any advice in advance, it is greatly appreciated. 

genomicranges • 81 views
ADD COMMENTlink written 3 months ago by sbailey50

Can you expand on this? How are the overlapping regions on the same patient not all the same regions? Or do you have two GRanges for each patient? If the latter, why not just use findOverlaps?

ADD REPLYlink written 3 months ago by James W. MacDonald49k
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