Hello,

I am new to using the Genomic Ranges package and manipulating GRanges
objects but I am currently attempting to overlap two GRanges objects. This
is the command I used -

findOverlaps(duke.dnase, h1.midmethgr, maxgap = 0L, minoverlap = 1L,type =
"any", select ="all")

where - duke.dnase and h1.midmethgr are the two GRanges objects.

I am wondering how to play with the parameters in order to perform a more
stringent overlap - I would like to modify with the number of base pairs
that need to overlap between coordinates in order for it to be considered a
hit. I am unsure as to what mioverlap = 1L means for this purpose.

I would really appreciate your help.

Thank you,
Kurinji

Graduate Student
Johns Hopkins University/University of Southern California

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