Hello Tiandao, The README file I pointed you to has the instructions for creating a track. Did you have a question about a particular step?
Or maybe the problem is related to track type? The RefSeq Genes track type is "genePred". It might be good to examine the current hg19 trackDb.ra file in the kent source tree to see how RefSeq Genes is set up there. Or maybe the problem is understanding the viewing options? A PSL, BED, and genePred track type all look a bit similar in the browser display. Dense mode will put all data on the same line. Both pack and full will display one line per table/file (where one line usually represents the alignment of a entire sequence). To see this, open the RefSeq Gene track in the browser and switch between the different display modes using the pull-down menu under the track name. Some display help: http://genome.ucsc.edu/goldenPath/help/hgTracksHelp.html#FineTuning Hopefully this helps, but if not please let us know. Best regards, Jen UCSC Genome Browser Support On 7/12/10 8:40 AM, Tiandao Li wrote: > Hi, > > I searched through genome and genome-mirror lists about how to add > annotation info (such as CDS) to genome database on local mirror. Where > can I find actual examples of trackDb.ra to load annotation info to > local mirror? > > Thanks, > > Tiandao > > On Tue, Jul 6, 2010 at 4:38 PM, Jennifer Jackson <[email protected] > <mailto:[email protected]>> wrote: > > Hi Tiandao, > > For genomes with annotation, the path would be: > > 1) load the reference genome sequence as you have done previously > 2) layer in annotation as tracks mapped to the genome in #1 > > This README in the kent source tree has the details for #2 > kent/src/product/README.trackDb > > I hope this pointer is useful, but please let us know if you need > more help. > > For next time, it would nice for us if you sent your question > through one our mailing lists. This question would be a good fit for > the [email protected] <mailto:[email protected]> > list. Doing this would help us to get you a speedy answer and also > help other users that are reviewing the Q & A on the public posting. > If you need private (not posted) communications, the list > [email protected] <mailto:[email protected]> would be an > alternative as it is internal to the UCSC Browser team only. > > Best regards, > Jen > > UCSC Genome Browser Support > http://genome.ucsc.edu/contacts.html > [email protected] <mailto:[email protected]> > [email protected] <mailto:[email protected]> > > > On 7/6/10 1:00 PM, Tiandao Li wrote: > > Hi Jen, > > We have several annotated genomes of viruses download from NCBI and > other DB serves. Now I want to import them with annotation into our > local genome browser. Would you please point me to the details > of how to > do it? I import some sequences without annotation to our browser > before. > > Thanks, > > Tiandao > > _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
