Hi Michael, No, there is not a way to set these items via browser lines. However, you could utilize the Session tool to create links instead.
To do this, get all of the settings just as you want them to be in a Genome Browser window with no custom tracks, then hit the "Session" link in the blue bar at the top of the page and enter a session name in the "Save current settings as named session" box. Now you will be able to use URLs such as this: http://genome.ucsc.edu/cgi-bin/hgTracks?hgS_doOtherUser=submit&hgS_otherUserName=Rhead&hgS_otherUserSessionName=WithAssemblyAndPosition You can then append custom tracks (with &hgt.customText=) directly to this URL. For instance, append this to the URL above: &hgt.customText=http://genome.ucsc.edu/goldenPath/help/test.bed To get a working link with a particular custom track and your settings: http://genome.ucsc.edu/cgi-bin/hgTracks?hgS_doOtherUser=submit&hgS_otherUserName=Rhead&hgS_otherUserSessionName=WithAssemblyAndPosition&hgt.customText=http://genome.ucsc.edu/goldenPath/help/test.bed I hope this makes things easier for you! If you have further questions, please feel free to contact us again at [email protected]. -- Brooke Rhead UCSC Genome Bioinformatics Group On 12/03/10 21:59, Michael Hoffman wrote: > Hello, > > I would like to set the following options: > > hgt.baseShowAsm 1 > hgt.baseShowPos 1 > hgt.baseShowRuler 1 > hgt.baseShowScaleBar 1 > nextExonArrows 0 > nextItemArrows 0 > > Is there some way to do this via browser lines in a custom text file > specified by the hgt.customText option to the hgTracks URL? It would be > more convenient to do that than setting them as part of the URL itself. > > Many thanks, > Michael Hoffman > > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
