I am trying to detect conservation in non exonic regions of the human genome. What I have is is a bed file obtained from the UCSC genome browser Cons Indels MmCf Track. This track shows conserved regions in the genome. When I displayed the file in the genome browser, I can see that there are regions showing a lot of tracks within specific regions that are non exonic. What I would like to do is to convert this bed file with the tracks to a x,y signal and then run a signal detection algorithm on it to detect those conserved regions.
I have an idea about the signal detection algorithm I am going to run, but I am not sure about how to go from a bed file to a x,y signal. Does anyone have an idea?
Thanks a lot for it,
By the way, if you think that I am not aproaching my problem in a proper way, let me know :)
My bed file is a BED3 file