[Genome] question about URL construction

[Donna Karolchik]

You have to be a bit careful when you use the db parameter -- it 
depends on what you want from your URL. If you want the URL to 
always point to that specific assembly version, it's better to use 
the db name. However, if you want your URL to always point to the 
latest assembly version for a genome (i.e. automatically use the 
newer version if an assembly is updated), then you should use the 
org name.

-Donna

----- Original Message ----- 
From: "Galt Barber" <galt at soe.ucsc.edu>
To: "Donna Karolchik" <donnak at soe.ucsc.edu>
Cc: <genome at soe.ucsc.edu>; <jing_gao at agilent.com>
Sent: Thursday, May 03, 2007 1:40 PM
Subject: Re: [Genome] question about URL construction


>
> You can usually just specify the db (e.g. hg18) in the URL
> (URL=http://server/path/...&db=hg18...), and the system
> will figure out the org automatically.
>
> -Galt
>
>
> On Thu, 3 May 2007, Donna Karolchik wrote:
>
>> hi Jing,
>>
>> To add to what Galt says, if you are using one of the org names
>> that contains white space (e.g. D. melanogaster), be sure to 
>> put a
>> "+" in place of the white space, i.e. D.+melanogaster.
>>
>> -Donna
>> -----------------------------------
>> Donna Karolchik
>> UCSC Genome Bioinformatics Group
>> http://genome.ucsc.edu
>>
>>
>> ----- Original Message -----
>> From: "Galt Barber" <galt at soe.ucsc.edu>
>> To: <jing_gao at agilent.com>
>> Cc: <genome at soe.ucsc.edu>
>> Sent: Thursday, May 03, 2007 1:31 PM
>> Subject: Re: [Genome] question about URL construction
>>
>>
>> >
>> > Check out name, description, organism, etc. in dbDB in this
>> > file:
>> >
>> > http://hgdownload.cse.ucsc.edu/admin/hgcentral.sql
>> >
>> > -Galt
>> >
>> >
>> > On Thu, 3 May 2007 jing_gao at agilent.com wrote:
>> >
>> >> Hi,
>> >>
>> >>
>> >>
>> >> I'm trying to figure out how to construct an URL to share my
>> >> annotation tracks with others. I'm following your 
>> >> instruction
>> >> on
>> >> http://genome.ucsc.edu/goldenPath/help/hgTracksHelp.html#SHARE,
>> >>
>> >> Which works well for human. And I could figure out org=mouse
>> >> and org=rat.
>> >>
>> >>
>> >>
>> >> But could you tell me the String values I should use for 
>> >> "org="
>> >> in the case for the following species:
>> >>
>> >>
>> >>
>> >> A. thaliana
>> >>
>> >> C. elegans
>> >>
>> >> D. melanogaster
>> >>
>> >> D. rerio
>> >>
>> >> G. gallus
>> >>
>> >> H. sapiens        human
>> >>
>> >> M. musculus     mouse
>> >>
>> >> R. norvegicus   rat
>> >>
>> >> S. cerevisiae
>> >>
>> >> S. pombe
>> >>
>> >> X. tropicalis
>> >>
>> >>
>> >>
>> >>
>> >>
>> >>
>> >>
>> >> Thank you very much.
>> >>
>> >>
>> >>
>> >> Jing
>> >>
>> >> _______________________________________________
>> >> Genome maillist  -  Genome at soe.ucsc.edu
>> >> http://www.soe.ucsc.edu/mailman/listinfo/genome
>> >>
>> > _______________________________________________
>> > Genome maillist  -  Genome at soe.ucsc.edu
>> > http://www.soe.ucsc.edu/mailman/listinfo/genome
>> >
>>
> _______________________________________________
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