Im using bamCoverage on a file and ive set the bin size to 1 but also normalizing using RPKM for defined regions using a bedgraph file. The output from bamCoverage however is in binned segments each with a (RPKM) score. Am I correct in interpreting then that
1 - the output bedgraph tells me the (total) RPKM score for that particular bin?
2 - to get the total RPKM score for the region defined in the bedgraph I need to sum all the RPKM scores given for that particular region?