Hi Christopher, Yes, this is the expected behavior. Only the output from the primary table is returned when using this function.
For cases where a full intersection is wanted, we recommend sending both datasets to Galaxy (this is a Table browser output option). There are options there to do a full join based on overlapping genomic intervals plus many other . See the Galaxy FAQ, tutorials, or contact their mailing list support for detailed help. Cheers, Jennifer ------------------------------------------------ Jennifer Jackson UCSC Genome Bioinformatics Group ----- "Christopher Watson" <[email protected]> wrote: > From: "Christopher Watson" <[email protected]> > To: [email protected] > Sent: Wednesday, January 20, 2010 2:21:28 AM GMT -08:00 US/Canada Pacific > Subject: [Genome] SNPs located within specific regions of CEPH individual > > I am trying to use the UCSC table browser to identify SNPs located > within specific regions of interest in individual "CEU daught '2878 > (pgNA12878)" using the Genome Variants track (Human assembly March > 2006). > > The problem I have encountered is that I have more than 1,000 regions > of interest. I therefore cannot upload a list of co-ordinates into > the region definition area of the table browser. I have generated a > custom track using the co-ordinates that relate to my regions of > interest and then attempted to create an 'intersection' between the > custom track and the "CEU daught '2878 (pgNA12878)" Genome Variants > track. However, once the intersection is created the output option > 'all fields from selected table' disappears. I need this option in > order to obtain the information pertaining to the SNPs (i.e. allele > name, allele count, etc.) that lie within the regions of interest. > Any help as to how I can go about obtaining this information would be > greatly appreciated. > > Regards, > Christopher Watson > > > > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
