Hi Deqiang, All of the tables that are accessible from the Table Browser can be retrieved as text files from our downloads server instead. You can find them by going to http://hgdownload.cse.ucsc.edu, then clicking "Mouse" then "Annotation database". It should take you to: http://hgdownload.cse.ucsc.edu/goldenPath/mm9/database/
If you are retrieving a lot of files, we suggest using ftp or rsync rather than http to access the files (instructions are on the page I linked to above). Note that not all of the tables are necessarily in BED format. There is extra logic applied when you choose "output format: BED" in the Table Browser when retrieving data from a table that is in some other format that converts it into BED. (You can tell what format any table is in by hitting the "describe table schema" button.) Other data formats are listed here (genePred is a very common one): http://genome.ucsc.edu/FAQ/FAQformat.html I hope this is helpful. If you have further questions, please feel free to contact us again at [email protected]. -- Brooke Rhead UCSC Genome Bioinformatics Group On 02/14/11 08:51, deqiang sun wrote: >> Do you know a simple method that I can download all the tracks available for mm9? >> >> I often use "Table browser" to download individually. But that's painful if I need to download a lot tracks. >> > Cheers, > > Deqiang Sun > Baylor College of Medicine > 713-798-4895 > [email protected] > > > > > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
