Hello Ji, It turns out that the table/file behind this data should have been formatted as a BED4, not a BED8. The extra columns (including strand) were not a part of the original dataset - the data there is just dummy place-holder information that should be ignored. bed format FAQ: http://genome.ucsc.edu/FAQ/FAQformat.html#format1
We are correcting this on our end. Expect to see the new, BED4 file on the production server soon. The data is fairly old, so why the data was unstranded when the track was created is unknown. It is very clear that the data is stranded now at the data source. We do know the track data is close to 5 years old. Much could have changed since then. A custom track with new data may be better, but we will leave the decision whether to use the older data in our track or the new data at the web site in a custom track up to you. Contacting the data source may be helpful. Thank you very much for your patience while we worked on your reply, Jennifer --------------------------------- Jennifer Jackson UCSC Genome Informatics Group http://genome.ucsc.edu/ On 5/25/10 8:46 AM, ji wan wrote: > Hi, > > I downloaded polyA_db dataset from table browser and found there are only > polyA sites located on the plus strand. Do you differentiate strand for this > annotation? Or there are other problems? Thanks, > > Ji > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
