Hello, The differences are just based on how we process the data. One option is to export the data from the Table browser, for just the columns you want (those in common). Another is to pre-process the files with a quick script to remove the extraneous columns of data - this is a very common process (and a good practice) when using public data. Think of it as an opportunity to firewall or "sanity check" of the data format, etc before you start a complicated analysis using it.
The data from UCSC will be consistent because we are very conscience about formatting standards, but as you know this can vary by project, even some of the big projects. We are sorry that this particular formatting is inconvenient for you and we hope that one of the two work-arounds will work for you, Jennifer ------------------------------------------------ Jennifer Jackson UCSC Genome Bioinformatics Group ----- "kenny daily" <[email protected]> wrote: > From: "kenny daily" <[email protected]> > To: [email protected] > Sent: Thursday, October 22, 2009 12:04:54 PM GMT -08:00 US/Canada Pacific > Subject: [Genome] Columns missing in refGene (example, rn4) > > Why are there different columns for refGene tables, depending on the > species? For example, rn4 is missing name2, cdsStartStat, cdsEndStat, > and > exonFrames. If this data does not exist, is it possible for you to add > these > columns with NULL data? It's cumbersome to change reading functions > for > different species when wanting to use this data and the columns > available > are not predictable. Thank you. > > -- > Kenny Daily > [email protected] > http://www.kennydaily.net/ > > --- Prediction is very difficult, especially about the future. (Niels > Bohr) > --- > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
