Off topic:how to extract data from RNA data

Question

[Learner]

I have several data obtained by Illumina HiSeq 2000 and saved as bedgraph.gz I would like to know the best way to extract the info for example extracting the data for a specific gene

I would really appreciate if you could explain me or even giving me an example

I know one can use IGV or IGB to import the data but I have no idea how to find a gene and extract the data, or I dont know if there is a better way to do it?

My main effort is to be able to correlate it with a methylation data

Many thanks