Hi,
I have provided my LD plot by Haploview and I used Linkage Format (.ped & .info) to this aim. I am wondering how could I have the gene structure on the top of my LD plot ?
I mean I need something like this :
Dear Mona,
As far as I’m concerned, Haploview is not capable of producing such a detailed plot. I believe that what you are looking for, the attached plot, consists of two separate graphs. The bottom one is the output of Haploview, and the upper one is added later manually using any photo editing software. My guess is that the upper one derived from Ensemble or other genome browsers such as UCSC or NIH genome viewer. You can simply type in your region of interest to obtain detailed chromosomal information. Later, you can overlay it on top of your Haploview output.
I hope this helps!
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