This Galaxy tool permits to prepare your files to be ready for Assembly Hub visualization.

Into a publicly accessible Galaxy (Linux for maximum tools compatibility), you will be able to use UCSC track hubs fonctionality to see your tracks.

1. You need to add this tool into your Galaxy.
2. Local Installation: See https://wiki.galaxyproject.org/Admin/Tools/AddToolTutorial
3. OR ToolShed Installation: Tool in testtoolshed at the moment
4. You need to enable Conda in you Galaxy (galaxy.ini)
5. If installed without TS (by downloading on GitHub), you need to have all the binaries accessible within Galaxy. You can use the script install_linux_binaries with a linux x86-64 (64bits)
6. Install the UCSC Track Hub datatype:
7. Take the hubAssembly.py in the hubaDatatype folder, and add it into lib/galaxy/datatypes in your Galaxy instance
8. Don't Use it this WIP because of changes for PR into Galaxy Use python ./util/add_datatype.py --galaxy_root path/to/myGalaxy to add huba datatype to the galaxy your tool is into
9. Look into hubaDataType README for more informations / in case the script fails for some reasons

• twoBitInfo
• faToTwoBit
• gff3ToGenePred
• genePredToBed
• sort
• bedToBigBed See SubTools.py for up-to-date used binaries and tool_dependencies.xml

See TODO.md for more informations