Hi Brooke,
Thanks a lot for you message. I'm looking to upgrade this tables/data
from hg18/36.1 to 36.3
>From the mapsnps installation file:
for hg18:
http://hgdownload.cse.ucsc.edu/goldenPath/hg18/database/
ccdsGene
ccdsInfo
ccdsKgMap
chromInfo
kgAlias
kgProtAlias
kgSpAlias
kgXref
knownCanonical
knownGene
knownGeneMrna
knownGenePep
knownIsoforms
knownToEnsembl
knownToPfam
knownToRefSeq
refSeqSummary
snp130
snp130CodingDbSnp
snp130Exceptions
snp130OrthoPt2Pa2Rm2
Those are from the mapsnps pipeline and it is also bundle with polyphen
2 from Harvard as well. It uses those tables do translate to Amino
Acids, set the location to either exonic/intronic, etc...
Does any of the files on the hg18/bigzips directory contains the data
for the tables above?
Please let me know if this does makes sense, many thanks,
Rene
-----Original Message-----
From: Brooke Rhead [mailto:[email protected]]
Sent: Monday, May 02, 2011 6:23 PM
To: Lopez, Rene
Cc: [email protected]
Subject: Re: [Genome] hg18 36.3 (goldenPath)
Hello Rene,
Are you perhaps looking for the assembly files, located here?
http://hgdownload.cse.ucsc.edu/goldenPath/hg18/bigZips/
(We refer to this as the "Full data set" on our downloads page, here:
http://hgdownload.cse.ucsc.edu/downloads.html#human).
NCBI's build 36.3 and 36.1 only differ in annotations, not in the
underlying genome assembly, so we do not have a Genome Browser for the
NCBI 36.3.
Are you looking for a particular annotation track?
--
Brooke Rhead
UCSC Genome Bioinformatics Group
On 05/02/11 09:56, Lopez, Rene wrote:
> Dear Genome UCSC,
>
>
>
> I was wondering if you have the hg18 36.3 version available, I got
what
> is on (but I believe that is 36.1):
>
>
>
>
http://hgdownload.cse.ucsc.edu/goldenPath/hg18/database/
>
>
>
> Or if you know how to create those files for 36.3 version
>
>
>
> The currentGenomes directory is pointing to 37.1/2
>
>
>
> Thanks in advance,
>
>
>
> Rene Lopez
>
> Bioinformatics Programmer Analyst III
>
>
>
> _______________________________________________
> Genome maillist - [email protected]
> https://lists.soe.ucsc.edu/mailman/listinfo/genome
_______________________________________________
Genome maillist - [email protected]
https://lists.soe.ucsc.edu/mailman/listinfo/genome
