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I know it is easy to this in Gnome, but how can I do it in LXDE?

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If you are the only person using the machine then the easiest option is to include the following line in the keyboard section of your XF86Config-4 file.

  Option          "XkbOptions"    "ctrl:swapcaps"

These ensures that the swap is done automatically whenever X starts.

(Reference: http://www.manicai.net/comp/swap-caps-ctrl.html)

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