[BioC] Calculate Outer Positions of GappedAlignmentPairs

[Dario Strbenac]

Hello,

I would like to calculate the furthest outer positions of the mapped read pairs. That is, the lowest and highest mapped coordinate of a read. In a later step, I want to get a coverage estimate that also includes coverage of the spliced out intron parts. I couldn't find any function already in GenomicRanges. I made my own code to create a GRanges object of these simple ranges, but was curious about any API functionality I overlooked that could do this.

Thanks,
           Dario.

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Dario Strbenac
PhD Student
University of Sydney
Camperdown NSW 2050
Australia