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keyboard shortcuts should be interesting but it's a call from your desktop environment i'm afraid, not this particular application (qjackctl)

you can take advantage of the d-bus interface if enabled; these are the methods:

• start - start the jack server;
• stop - stop it;
• main - toggle main window visibility;
• messages - toggle Messages window/tab visibility;
• status - toggle Status window/tab visibility;
• session - toggle Session window visibility;
• connections - toggle Connections window visibility;
• patchbay - toggle Patchbay window visibility;
• rewind - Rewind transport ;
• backward - Backward transport ;
• play - Play transport;
• pause - Pause transport;
• forward - Forward transport;
• setup - show Setup dialog;
• about - show About box;
• quit - yep, Quit;
• preset label - load label preset

eg. stop the jack server:

eg. load PRESET:

hth.
cheers