Hi Jing, You can add maxItems=10000 (or some other large number) to the track line. This will allow you to view Cdkn1a, for example, in squish mode. Keep in mind that setting maxItems to very large numbers can lead to issues when trying to view too many items - the browser can become unusable as the page may be so large.
One tip: if your track contains reads, you could use a bigWig as well to visualize the read density. If you have any additional questions, please reply to: [email protected] - Greg Roe UCSC Genome Bioinformatics Group On 1/15/12 1:50 PM, Huang, Jing (NIH/NCI) [E] wrote: > Dear UCSC team, > > I am trying to view a bigBed file in UCSC browser and found it is very > efficient. > track type=bigBed name="JH08" > bigDataUrl=ftp://caftpd.nci.nih.gov/pub/UCSC/JH08.bb > > However, when I zoomed out to a certain degree, the tracks become "dense" > mode even the option in custom track was still in squish mode. I guess this > is because there are too many items to display on the Browser. For example, > if you type a gene called "Cdkn1a", the tracks will become "dense". I am > wondering whether I could change some parameters to display my track as a > squish mode in a relatively large genomic region. > > Thank you very much! > > Jing > > Jing Huang, PhD > Head, Cancer and Stem Cell Epigenetics > Laboratory of Cancer Biology and Genetics > Center for Cancer Research > National Cancer Institute > 37 Convent Dr. Building 37/Rm 3140A > Bethesda, MD 20892 > Tel: 301-496-2202 > > > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
