Hi Craig, It sounds like you were on the right track: Genome Graphs is the tool we have for displaying the entire genome at once. I am able to see your data in Genome Graphs by doing the following:
- load the data as a custom track (which you have already done) - go to the Genome Graphs tool (http://genome.ucsc.edu/cgi-bin/hgGenome) and hit the "import" button - select your custom track from the drop-down menus and give the data set a name, if desired, then hit "submit" - select your imported data from the "graph" menu for display The image should update with a genome-wide view that shows the density of the data. Does this work for you? If you have further questions, please contact us again at [email protected]. -- Brooke Rhead UCSC Genome Bioinformatics Group On 12/3/11 6:21 AM, Benson, Craig C wrote: > I have a custom track with about 90,000 elements of 10-bps long > (known as CArG elements) in a bed format. I like how I can see the > "density" map of my custom track for each chromosome, as illustrated > in the attached screenshot for chromosome 1 of mm9. However, I was > wondering if there was a way I can view this type of gene map for all > chromosomes in one image? I have tried using the Genome Graphs > program, but have had limited success. I also tried converting the > bed to a "chromosome base" format with each CArG element assigned a > value of 1, but it just showed a solid blue line above each > chromosome. It would be most useful for me to be able to quickly > look at all the chromosomes and see areas of increased CArG element > density. Is there an easy way to create such an image or display? I > have also attached the bed file for your reference. > > Thanks! Craig > > Craig C. Benson, MD Chief Resident of Internal Medicine-Pediatrics > University of Rochester Medical Center > > > > _______________________________________________ Genome maillist - > [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
