Good Morning Jay: It isn't clear what you are referring to here.
Do you say you have protein sequences that you want to load into the genome browser ? To do that, you need to align the proteins to the genome with an aligner, for example blat. Once you have those positions as psl files, you can load the psl file as a track in the genome browser. --Hiram Jaysheel Bhavsar wrote: > Hi guys, > I am very new at this genome viewer business, so please bare with me if > I don't have the terminology or understanding of the inner workings. > > I need to get genome browser up and running for genome that we have in > the lab. I have been able to get a local copy of genome browser up and > running, and have been able to add a custom track, along with gc5Base, and > wiggle info as described here > (http://genomewiki.ucsc.edu/index.php/Building_a_new_genome_database). > Everything seem to work as expected (I haven't played around with all the > options in trackDb.ra, but that will come later). > > Issue 1: > Now the issue is that I am not able to get to the actually proteins/seq > for the tracks loaded. From what I understand I can create an entry in > gdbPdb, which seems straight forward (insert statement with org db name like > hg18 and proteinsX name). But I can't see find information as to what needs > to be in proteinesX database. I wasn't able find a utility or hgX loader > script either (unless I missed it). Could someone please point me in the > right direction, as to how to upload my protein/seq data. > > Issue 2: > I have some metadata associated with each chromosome that I loaded into > db, is there a way to show that info on the browser? I have a tab delimited > file of protein id, gotermId and go annotations. > > Thank you > Jay _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
