Dear members,

I have a set of chip-Seq peaks which I want to find the overlap with a bench of annotations downloaded from ucsc.

When I am doing the overlap between my peaks and annotations list, I am finding 5635 positive matches. When adding "type = "start"", I have no results returned. However, when I am visualizing the 5635 intervals, it overlaps many start site of my genes annotations.

I tried to update IRanges but I am still getting no results.

Any idea?

Thanks.


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