Latest
Open
RNA-Seq
ChIP-Seq
SNP
Assembly
Forum
Planet
All »
Home
Log In
Question: Chicken Reference Genome
0
gravatar for Nicholas Beckloff
6.6 years ago by
Nicholas Beckloff • 20
Nicholas Beckloff • 20 wrote:
Dear Galaxy, I noticed upon uploading a FASTQ file that the ICGSC version of the 2011 November Chicken genome is available. Why is this not available for use with the tools? Also, is this available for download? -- Nicholas Beckloff, PhD Genomics Core Laboratory Director Department of Genetics and Genome Sciences Case Western Reserve University 2109 Adelbert Road BRB 646 Cleveland, OH 44106 phone: 216-368-2791 fax: 216-368-3432 http://genomics.case.edu email: nmb64@case.edu
galaxy • 1.2k views
ADD COMMENT • link •
modified 6.6 years ago by Jennifer Hillman Jackson ♦ 25k • written 6.6 years ago by Nicholas Beckloff • 20
0
gravatar for Jennifer Hillman Jackson
6.6 years ago by
Jennifer Hillman Jackson ♦ 25k
United States
Jennifer Hillman Jackson ♦ 25k wrote:
Hello, This genome 'Chicken Nov. 2011 (ICGSC Gallus_gallus-4.0/galGal4) (galGal4)' is currently in the genome builds list as a "database" assignment choice, but the actual genome data is not incorporated into Galaxy (yet). This allows data to be labeled and displayed at the UCSC Genome Browser. As a standard practice, Galaxy includes all UCSC builds, some that we incorporate native data for and some that we do not (but user's can). The genome galGal4 is on the list of genomes to be added to tools on the public main instance as a native genome in the near term. Meanwhile, use the build with tools using the 'custom reference genome' option. Instructions: http://wiki.g2.bx.psu.edu/Support#Custom_reference_genome Galaxy does not host databases, but UCSC does on their downloads server: http://hgdownload.cse.ucsc.edu/downloads.html Hopefully this helps, Jen Galaxy team -- Jennifer Jackson http://galaxyproject.org
ADD COMMENT • link written 6.6 years ago by Jennifer Hillman Jackson ♦ 25k
Please log in to add an answer.

Similar posts • Search »

Content
Help
Access
Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 178 users visited in the last hour