post-assembly_analysis:banana_slug_genome_browser
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post-assembly_analysis:banana_slug_genome_browser [2015/05/15 19:23] ceisenhart |
post-assembly_analysis:banana_slug_genome_browser [2015/07/28 06:05] ceisenhart ↷ Page moved from banana_slug_genome_browser to post-assembly_analysis:banana_slug_genome_browser |
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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 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; | + | Currently the following assemblies are supported; |
| + | |||
| + | ABySS | ||
| SOAP | SOAP | ||
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| Discovar //de novo// | Discovar //de novo// | ||
| - | ==== Setup and viewing ==== | + | Mitochondrial |
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| + | |||
| + | ===== Mounting the banana slug track hub ===== | ||
| 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. | ||
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| + | **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. | ||
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| + | https://genome.ucsc.edu/goldenPath/help/hgTrackHubHelp.html | ||
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post-assembly_analysis/banana_slug_genome_browser.txt · Last modified: 2015/07/28 06:05 by ceisenhart
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