Converting UCSCData Class to GRanges Class
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8.8 years ago

Dear all,

I have a UCSCData class object and would like to transform it into a Granges object. Is there any easy way of doing that (apart from doing that manually using the GRanges function)?

More specifically, I have a list of ±50K promoter elements from UCSC:

summary(prom)
  Length    Class     Mode 
   50066 UCSCData       S4

Many thanks,
Dimitris

Genome R GRanges • 2.6k views
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Entering edit mode
8.8 years ago

From a little playing with a UCSCData object I got via rtracklayer, it sure seems that just calling

GRanges(prom)

should give you a set of the GRanges for every promoter. Did that not work for you?

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yes, thanks a lot

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