STEP 1: In a publicly accessible directory, copy this Arabidopsis thaliana plant assembly hub, which includes an araTha1.2bit file, using the following wget command:
wget -r --no-parent --reject "index.html*" -nH --cut-dirs=3 http://genome.ucsc.edu/goldenPath/help/examples/hubExamples/hubAssembly/plantAraTha1/Alternatively, if you do not have wget installed, you can curl these files individually. Perform the curl -O option in the location you wish to copy the files:
curl -O http://genome.ucsc.edu/goldenPath/help/examples/hubExamples/hubAssembly/plantAraTha1/hub.txtIf you use curl, be sure to recreate the structure with matching araTha1 and araTha1/bbi directories. Double check you have all the files by looking here:
http://genome.ucsc.edu/goldenPath/help/examples/hubExamples/hubAssembly/plantAraTha1/
STEP 2: Paste your hub.txt link (http://yourURL/hub.txt) into the
-My Hubs tab of the Track Data Hubs page,
+Connected Hubs tab of the Track Data Hubs page,
click the "Add Hub" button, and then click the "Genome Browser" link from the
top bar.
Alternatively build a URL that will directly load your assembly hub and display it on hgGateway. Then click the "Genome Browser" link from the top bar to view your assembly hub:
http://genome.ucsc.edu/cgi-bin/hgHubConnect?hgHub_do_redirect=on&hgHubConnect.remakeTrackHub=on&hgHub_do_firstDb=1&hubUrl=http://yourURL/hub.txt
This URL should work the same as using the original data just copied:
http://genome.ucsc.edu/cgi-bin/hgHubConnect?hgHub_do_redirect=on&hgHubConnect.remakeTrackHub=on&hgHub_do_firstDb=1&hubUrl=http://genome.ucsc.edu/goldenPath/help/examples/hubExamples/hubAssembly/plantAraTha1/hub.txt