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post-assembly_analysis:banana_slug_genome_browser [2015/05/27 20:25] ceisenhart |
post-assembly_analysis:banana_slug_genome_browser [2015/07/16 18:11] ceisenhart |
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- | =====Banana slug genome browser===== | + | ======Banana slug genome browser====== |
- | Currently the banana slug genome is supported as a private track hub. | + | Currently the banana slug genome is supported as a private track hub. For those who know how to set up custom track hubs, the link is here. **If it is your first time setting up a custom track hub, follow the instructions for 'Mounting the banana slug track hub' below!** |
http://hgwdev-ceisenhart.cse.ucsc.edu/~ceisenhart/hubs/bananaSlug/hub.txt | 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. | + | Currently the following assemblies are supported; |
- | + | ||
- | The default contig names are often wrong, the correct names 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 the following assemblies are supported; | + | |
ABySS | ABySS | ||
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- | ==== Setup and viewing ==== | + | ===== Mounting the banana slug track hub ===== |
- | To setup a track hub follow the instructions here, the banana slug track hub has already been created. To view it skip to the next section. | + | |
- | + | ||
- | https://genome.ucsc.edu/goldenPath/help/hgTrackHubHelp.html | + | |
To view the banana slug data please go to | To view the banana slug data please go to | ||
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http://hgwdev-ceisenhart.cse.ucsc.edu/~ceisenhart/hubs/bananaSlug/hub.txt | 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. | + | into the 'URL' text box and click the 'Add hub' button. You will be redirected to the banana slug hub which can be used as normal. |
+ | |||
+ | =====Creating a new track hub===== | ||
+ | To setup a custom track hub follow the instructions here. | ||
+ | |||
+ | **Note the banana slug track hub has already been created.** These are the instructions that were used to create it the first time, it can be accessed using the instructions above. | ||
+ | |||
+ | https://genome.ucsc.edu/goldenPath/help/hgTrackHubHelp.html | ||
+ |