This shows you the differences between two versions of the page.
Next revision | Previous revision Next revision Both sides next revision | ||
post-assembly_analysis:banana_slug_genome_browser [2010/03/31 02:07] galt created |
post-assembly_analysis:banana_slug_genome_browser [2015/05/16 02:15] ceisenhart |
||
---|---|---|---|
Line 1: | Line 1: | ||
- | * [[http://bananadev.cse.ucsc.edu/|Banana Slug Genome Browser]] will have a UCSC genome browser, once we get to the point of having few enough contigs that building a browser makes sense. | + | =====Banana slug genome browser===== |
+ | Currently the banana slug genome is supported as a private track hub. | ||
+ | |||
+ | http://hgwdev-ceisenhart.cse.ucsc.edu/~ceisenhart/hubs/bananaSlug/hub.txt | ||
+ | |||
+ | The entire Ariolimax dolichophallus mitochondrial genome seems to be up on the browser in three contigs! Hopefully tracks will be made soon. | ||
+ | |||
+ | The data on the browser is in a VERY EARLY FORMAT. Currently only the 30 longest contig's for each group are supported on the browser. The contigs are re-named before uploading, and can be viewed by using the 'sequences' button on the browser. Contact Chris Eisenhart to have your team's data put on the browser (ceisenhart@soe.ucsc.edu). Currently there is data on the banana slug hub for the following teams; | ||
+ | |||
+ | SOAP | ||
+ | |||
+ | Discovar //de novo// | ||
+ | |||
+ | ==== Setup and viewing ==== | ||
+ | To view the banana slug data please go to | ||
+ | |||
+ | https://genome.ucsc.edu/cgi-bin/hgGateway | ||
+ | |||
+ | and click the 'track hubs' button | ||
+ | |||
+ | {{ ::firstbrowsershot.png |}} | ||
+ | |||
+ | next navigate to the 'my hubs' tab | ||
+ | |||
+ | {{ ::secondbrowsershot.png |}} | ||
+ | |||
+ | Paste the url provided, | ||
+ | |||
+ | http://hgwdev-ceisenhart.cse.ucsc.edu/~ceisenhart/hubs/bananaSlug/hub.txt | ||
+ | |||
+ | into the 'URL' text box and click the 'Add hub' button. You will be redirected to the banana slug hub. |