Galaxy Lab

1. 1

   Copy your Galaxy API key

   On your Galaxy server (such as usegalaxy.org or usegalaxy.eu), open User → Preferences → Manage API key.

2. 2

   Add it to RBAi

   Open Settings → Galaxy and paste the key. It is stored encrypted on the server. Galaxy Lab uses it to run jobs, and the job tracker uses it to tell you when they finish.

In Galaxy Lab, describe the analysis in the composer, for example Run FastQC on the two read files in my history. The agent works through these steps:

• it searches the server’s tools and reads the chosen tool’s form;
• it uploads data, from a file or a URL;
• it runs the tool in your history;
• it follows the job until it finishes.

The agent can find and run workflows: IWC workflows, curated workflows and published ones. It can also build or refactor your own. It manages histories, datasets and collections too: it can create, copy, export and archive them.

Jobs lists Galaxy jobs and workflow invocations, together with BLAST, alignment, phylogeny and literature review jobs. When a Galaxy job fails, the agent can read its error output and explain what went wrong. Jobs