curl -I http://yourURL/hub.txtNow that you have the assembly hub copied from above, you can copy the directory and start to edit some of the documents such as genomes.txt, groups.txt, and trackDb.txt to understand how they work. Refer to the Assembly Hub User Guide to understand how to build a twoBit file for your own original fasta files. Read more about trackDb settings in the definition document.
Assembly hubs also support chromAlias and chromAuthority, which let the Browser map chromosome names
across different naming schemes and display a preferred convention. A default naming scheme can be
set using the chromAuthority setting.
-This assembly hub is an abbreviated version of a larger plant assembly Public Hub. You can -explore the larger hub structure here.
+This assembly hub is an abbreviated version of a much larger collection of plant assembly hubs. +You can explore that collection in the +GenArk plant +genomes index, which carries several Arabidopsis thaliana assemblies alongside +hundreds of other plants.
Please note that the Browser waits 5 minutes before checking for any changes to these files.
When editing hub.txt, genomes.txt, trackDb.txt, and related hub files, shorten this delay by
adding udcTimeout=1 to your URL. For more information, please see the
Debugging and Updating Track Hubs section of
the Track Hub User Guide. Also, for more detailed
instructions on setting up a regular hub, please see the Setting Up Your Own Track Hub section of the Track Hub User Guide.
By running gfServers from your institution, you can enable blat on your assembly hubs. See Starting Blat and In-Silico PCR for an Assembly Hub for details.