Hello Charleston, You are right, the track settings for LD values are not being saved, so the only values that can be displayed are the LOD type. This is a bug, and we have located the problem and have fixed it.
The fix will not be available on our regular web site until a week from now. Until then, you are welcome to use our test site to view this track with the properly functioning track controls: http://genome-test.cse.ucsc.edu Note that, in general, there are a lot of untested or experimental tracks on the test site. However, the HapMap LD Phased track should be the same on both sites. Thank you for reporting this error, and sorry for any inconvenience it has caused. -- Brooke Rhead UCSC Genome Bioinformatics Group Charleston Chiang wrote: > To whom this may concern, > > I was trying to look at the LD pattern in the gene huntingtin > (chr4:3,113,412-3,282,656). I specified r^2 for LD value in the track > setting ( > http://genome.ucsc.edu/cgi-bin/hgTrackUi?hgsid=114494456&c=chr4&g=hapmapLd). > However, when I refreshed the viewer, the label was LD YRI LOD. The > triangle plots did not appear to change whether I use r^2, D', or LOD, and > were also resistent to changes when I specify coloring with something other > than red. Is the triangle plot not showing the proper user specification? > > thanks, > Charleston > _______________________________________________ > Genome maillist - [email protected] > http://www.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] http://www.soe.ucsc.edu/mailman/listinfo/genome
